In a landmark decision, the Supreme Court affirmed that Philippine Airlines (PAL) is exempt from the Minimum Corporate Income Tax (MCIT) under its franchise, Presidential Decree (P.D.) 1590. This ruling underscores that PAL’s tax obligations are governed by its franchise agreement, which allows it to pay either the basic corporate income tax or a franchise tax, whichever is lower, in lieu of all other taxes, except real property tax. This means PAL’s tax liabilities are determined by the preferential terms of its franchise, not standard tax laws applicable to other corporations, highlighting the importance of specific franchise agreements in determining tax obligations.

PAL’s Flight to Tax Relief: Can a Franchise Trump the MCIT?

The heart of the legal matter lies in determining whether the MCIT, as imposed by the National Internal Revenue Code (NIRC), applies to PAL, given the specific tax provisions outlined in its franchise, P.D. 1590. The Commissioner of Internal Revenue argued that PAL, having opted to be covered by the income tax provisions of the NIRC, is consequently subject to the MCIT. The CIR further contended that the MCIT is a type of income tax and, therefore, does not fall under the category of “other taxes” from which PAL is allegedly exempt. This view implies that the MCIT provision is an amendment to the NIRC, not PAL’s charter, thus obligating PAL to pay the MCIT as a result of its choice to pay income tax rather than franchise tax.

However, PAL countered that P.D. 1590 does not obligate it to pay other taxes, particularly the MCIT, especially when it incurs a net operating loss. According to PAL, since the MCIT is neither the basic corporate income tax nor the 2% franchise tax, nor the real property tax mentioned in Section 13 of P.D. 1590, it should be classified under “other taxes,” for which PAL is not liable. This argument highlights the core of PAL’s defense: that its franchise agreement provides a distinct and preferential tax treatment, shielding it from taxes beyond those explicitly stated in the franchise.

The Supreme Court, in its analysis, referred to Section 27 of the NIRC of 1997, as amended, which outlines the rates of income tax on domestic corporations. According to the law:

SEC. 27. Rates of Income Tax on Domestic Corporations.—
(A) In General.— Except as otherwise provided in this Code, an income tax of thirty-five percent (35%) is hereby imposed upon the taxable income derived during each taxable year from all sources within and without the Philippines by every corporation…
(E) Minimum Corporate Income Tax on Domestic Corporations.—
(1) Imposition of Tax — A minimum corporate income tax of two percent (2%) of the gross income as of the end of the taxable year…

The Court underscored that while the NIRC typically requires a domestic corporation to pay either the income tax under Section 27(A) or the MCIT under Section 27(E), depending on which is higher, this rule applies to PAL only to the extent allowed by the provisions of its franchise. The Court then turned to P.D. 1590, the specific franchise of PAL, which contains pertinent provisions governing its taxation:

Section 13. In consideration of the franchise and rights hereby granted, the grantee shall pay to the Philippine Government during the life of this franchise whichever of subsections (a) and (b) hereunder will result in a lower tax:
(a) The basic corporate income tax based on the grantee’s annual net taxable income computed in accordance with the provisions of the National Internal Revenue Code; or
(b) A franchise tax of two per cent (2%) of the gross revenues derived by the grantee from all sources…
The tax paid by the grantee under either of the above alternatives shall be in lieu of all other taxes, duties, royalties, registration, license, and other fees and charges of any kind, nature, or description…

The Court emphasized that PAL’s taxation during the franchise’s validity is governed by two rules: PAL pays either the basic corporate income tax or franchise tax, whichever is lower; and this payment is in lieu of all other taxes, except real property tax. The “basic corporate income tax” is based on PAL’s annual net taxable income as per the NIRC, while the franchise tax is 2% of PAL’s gross revenues. The Court reiterated its stance in Commissioner of Internal Revenue v. Philippine Airlines, Inc. that PAL cannot be subjected to MCIT.

The Supreme Court highlighted several key reasons for this exemption. First, Section 13(a) of P.D. 1590 refers specifically to “basic corporate income tax,” aligning with the general rate of 35% (reduced to 32% by 2000) stipulated in Section 27(A) of the NIRC of 1997. Second, Section 13(a) mandates that the basic corporate income tax be computed based on PAL’s annual net taxable income. This is consistent with Section 27(A) of the NIRC of 1997, which imposes a rate on the taxable income of the domestic corporation. Taxable income, as defined under Section 31 of the NIRC of 1997, involves deducting allowances and exemptions, if any, from gross income, as specified by the Code or special laws.

In contrast, the 2% MCIT under Section 27(E) of the NIRC of 1997 is based on the gross income of the domestic corporation, which has a special definition under Section 27(E)(4) of the NIRC of 1997. Given these distinct differences between taxable income and gross income, the Court concluded that the basic corporate income tax, for which PAL is liable under Section 13(a) of P.D. 1590, does not encompass the MCIT under Section 27(E) of the NIRC of 1997.

Third, even if both the basic corporate income tax and the MCIT are income taxes under Section 27 of the NIRC of 1997, they are distinct and separate taxes. The MCIT is different from the basic corporate income tax not just in rates but also in the bases for their computation. The MCIT is included in “all other taxes” from which PAL is exempted. Fourth, Section 13 of P.D. 1590 intends to extend tax concessions to PAL, allowing it to pay whichever is lower between the basic corporate income tax or the franchise tax; the tax so paid shall be in lieu of all other taxes, except real property tax. The imposition of MCIT on PAL would result in PAL having three tax alternatives, namely, the basic corporate income tax, MCIT, or franchise tax, violating Section 13 of P.D. 1590 to make PAL pay for the lower amount of tax.

Fifth, the Court rejected the Commissioner’s Substitution Theory, which posits that PAL may not invoke the “in lieu of all other taxes” clause if it did not pay anything as basic corporate income tax or franchise tax. A careful reading of Section 13 rebuts the argument of the CIR that the “in lieu of all other taxes” proviso is a mere incentive that applies only when PAL actually pays something. It is not the fact of tax payment that exempts it, but the exercise of its option. The Court also emphasized that Republic Act No. 9337, which abolished the franchise tax, cannot be applied retroactively to the fiscal year in question.

Sixth, P.D. 1590 explicitly allows PAL to carry over as deduction any net loss incurred in any year, up to five years following the year of such loss. If PAL is subjected to MCIT, the provision in P.D. 1590 on net loss carry-over will be rendered nugatory. In conclusion, between P.D. 1590, which is a special law specifically governing the franchise of PAL, and the NIRC of 1997, which is a general law on national internal revenue taxes, the former prevails.

FAQs

What was the key issue in this case?	The key issue was whether Philippine Airlines (PAL) is liable for the Minimum Corporate Income Tax (MCIT) despite the “in lieu of all other taxes” provision in its franchise, Presidential Decree (P.D.) 1590. This provision allows PAL to pay either basic corporate income tax or franchise tax, whichever is lower, in place of all other taxes.
What is the Minimum Corporate Income Tax (MCIT)?	The MCIT is a 2% tax on a corporation’s gross income, imposed when it exceeds the regular corporate income tax. It is designed to ensure that corporations pay a minimum level of income tax, even when they report low or no taxable income.
What is the “in lieu of all other taxes” provision?	This provision in PAL’s franchise states that the tax paid under either the basic corporate income tax or the franchise tax alternatives covers all other national and local taxes. The only exception is the real property tax, providing a significant tax advantage to PAL.
Why did the CIR argue that PAL should pay the MCIT?	The CIR argued that PAL, having opted to be covered by the income tax provisions of the NIRC, should also be subject to the MCIT, considering it a type of income tax. The CIR also contended that the MCIT provision amended the NIRC, not PAL’s franchise, thus PAL should be liable.
How did the Supreme Court rule on this issue?	The Supreme Court ruled in favor of PAL, stating that the MCIT is one of the “other taxes” from which PAL is exempted under its franchise. The Court held that P.D. 1590, as a special law, prevails over the general provisions of the NIRC.
What is the significance of P.D. 1590 in this case?	P.D. 1590 grants PAL a unique tax treatment, allowing it to pay either the basic corporate income tax or the franchise tax, whichever is lower, instead of all other taxes. This special tax treatment, intended as an incentive, remains valid unless expressly amended or repealed by another special law.
Does this ruling mean PAL is entirely tax-exempt?	No, PAL is not entirely tax-exempt. It must still pay either the basic corporate income tax or the franchise tax, and it is also liable for real property tax. The ruling exempts PAL from other taxes, including the MCIT.
What is the “Substitution Theory” mentioned in the decision?	The “Substitution Theory” suggests that PAL can only avail of the “in lieu of all other taxes” clause if it actually pays either the basic corporate income tax or the franchise tax. The Supreme Court rejected this theory, stating that it is the exercise of the option to pay one of those taxes, not the actual payment, that triggers the exemption.
What is the effect of Republic Act No. 9337 on PAL’s tax obligations?	Republic Act No. 9337, which abolished the franchise tax, cannot be applied retroactively to the fiscal year in question (ending March 31, 2000). Therefore, any amendments introduced by R.A. 9337 do not affect PAL’s liability for the MCIT for that period.

In summary, the Supreme Court’s decision reinforces the principle that specific franchise agreements, like P.D. 1590 for Philippine Airlines, provide distinct tax treatments that must be respected. This case highlights the importance of carefully reviewing and understanding such agreements to determine the precise tax obligations of the entities involved. The ruling provides clarity on the scope and applicability of the “in lieu of all other taxes” provision, offering significant implications for similar franchise holders.

For inquiries regarding the application of this ruling to specific circumstances, please contact ASG Law through contact or via email at frontdesk@asglawpartners.com.

Disclaimer: This analysis is provided for informational purposes only and does not constitute legal advice. For specific legal guidance tailored to your situation, please consult with a qualified attorney.
Source: COMMISSIONER OF INTERNAL REVENUE vs. PHILIPPINE AIRLINES, INC., G.R. No. 179259, September 25, 2013