Noncompliance Penalties
What are the penalties for violating U.S. Transfer Pricing rules?
Failure to comply with the Section 482 transfer pricing regulations can result in penalties equal to 20% or 40% of the difference between the tax paid and the tax owed depending on whether certain thresholds are met. Internal Revenue Code Section 6662 describes these thresholds and the rules for determining which penalty applies. The rules are further detailed in the following regulations:
Sec. 1.6662-2 Accuracy-related penalty.
    (a) In general. Section 6662(a) imposes an accuracy-related penalty 
					on any portion of an underpayment of tax (as defined in section 6664(a) 
					and Sec. 1.6664-2) required to be shown on a return if such portion is 
					attributable to one or more of the following types of misconduct:
					    (1) Negligence or disregard of rules or regulations (see Sec. 
					1.6662-3);
					    (2) Any substantial understatement of income tax (see Sec. 1.6662-
					4); or
					    (3) Any substantial (or gross) valuation misstatement under chapter 
					1 ("substantial valuation misstatement'' or "gross valuation
					misstatement''), provided the applicable dollar limitation set forth in 
						section 6662(e)(2) is satisfied (see Sec. 1.6662-5).
The accuracy-related penalty applies only in cases in which a return of 
					tax is filed, except that the penalty does not apply in the case of a 
					return prepared by the Secretary under the authority of section 6020(b). 
					The accuracy-related penalty under section 6662 and the penalty under 
					section 6651 for failure to timely file a return of tax may both be 
					imposed on the same portion of an underpayment if a return is filed, but 
					is filed late. The fact that a return is filed late, however, is not 
					taken into account in determining whether an accuracy-related penalty 
					should be imposed. No accuracy-related penalty may be imposed on any 
					portion of an underpayment of tax on which the fraud penalty set forth 
					in section 6663 is imposed.
					    (b) Amount of penalty--(1) In general. The amount of the accuracy-
					related penalty is 20 percent of the portion of an underpayment of tax 
					required to be shown on a return that is attributable to any of the 
					types of misconduct listed in paragraphs (a)(1) through (a)(3) of this 
					section, except as provided in paragraph (b)(2) of this section.
					    (2) Increase in penalty for gross valuation misstatement. In the 
					case of a gross valuation misstatement, as defined in section 6662(h)(2) 
					and Sec. 1.6662-5(e)(2), the amount of the accuracy-related penalty is 
					40 percent of the portion of an underpayment of tax required to be shown 
					on a return that is attributable to the gross valuation misstatement, 
					provided the applicable dollar limitation set forth in section 
					6662(e)(2) is satisfied.
					    (c) No stacking of accuracy-related penalty components. The maximum 
					accuracy-related penalty imposed on a portion of an underpayment may not 
					exceed 20 percent of such portion (40 percent of the portion 
					attributable to a gross valuation misstatement), notwithstanding that 
					such portion is attributable to more than one of the types of misconduct
					described in paragraph (a) of this section. For 
					example, if a portion of an underpayment of tax required to be shown on 
					a return is attributable both to negligence and a substantial 
					understatement of income tax, the maximum accuracy-related penalty is 20 
					percent of such portion. Similarly, the maximum accuracy-related penalty 
					imposed on any portion of an underpayment that is attributable both to 
					negligence and a gross valuation misstatement is 40 percent of such 
					portion.
					    (d) Effective dates--(1) Returns due before January 1, 1994. Section 
					1.6662-3(c) and Sec. Sec. 1.6662-4 (e) and (f) (relating to methods of 
					making adequate disclosure) (as contained in 26 CFR part 1 revised April 
					1, 1995) apply to returns the due date of which (determined without 
					regard to extensions of time for filing) is after December 31, 1991, but 
					before January 1, 1994. Except as provided in the preceding sentence and 
					in paragraphs (d)(2), (3), and (4) of this section, Sec. Sec. 1.6662-1 
					through 1.6662-5 apply to returns the due date of which (determined 
					without regard to extensions of time for filing) is after December 31, 
					1989, but before January 1, 1994. To the extent the provisions of these 
					regulations were not reflected in the statute as amended by the Omnibus 
					Budget Reconciliation Act of 1989 (OBRA 1989), in Notice 90-20, 1990-1 
					C.B. 328, or in rules and regulations in effect prior to March 4, 1991 
					(to the extent not inconsistent with the statute as amended by OBRA 
					1989), these regulations will not be adversely applied to a taxpayer who 
					took a position based upon such prior rules on a return filed before 
					January 1, 1992.
					    (2) Returns due after December 31, 1993. Except as provided in 
					paragraphs (d)(3), (4) and (5) of this section and the last sentence of 
					this paragraph (d)(2), the provisions of Sec. Sec. 1.6662-1 through 
					1.6662-4 and Sec. 1.6662-7 (as revised to reflect the changes made to 
					the accuracy-related penalty by the Omnibus Budget Reconciliation Act of 
					1993) and of Sec. 1.6662-5 apply to returns the due date of which 
					(determined without regard to extensions of time for filing) is after 
					December 31, 1993. These changes include raising the disclosure standard 
					for the penalties for disregarding rules or regulations and for a 
					substantial understatement of income tax from not frivolous to 
					reasonable basis, eliminating the disclosure exception for the 
					negligence penalty, and providing guidance on the meaning of reasonable 
					basis. The Omnibus Budget Reconciliation Act of 1993 changes relating to 
					the penalties for negligence or disregard of rules or regulations will 
					not apply to returns (including qualified amended returns) that are 
					filed on or before March 14, 1994, but the provisions of Sec. Sec. 
					1.6662-1 through 1.6662-3 (as contained in 26 CFR part 1 revised April 
					1, 1995) relating to those penalties will apply to such returns.
					    (3) Special rules for tax shelter items. Sections 1.6662-4(g)(1) and 
					1.6662-4(g)(4) apply to returns the due date of which (determined 
					without regard to extensions of time for filing) is after September 1, 
					1995. Except as provided in the last sentence of this paragraph (d)(3), 
					Sec. Sec. 1.6662-4(g)(1) and 1.6662-4(g)(4) (as contained in 26 CFR 
					part 1 revised April 1, 1995) apply to returns the due date of which 
					(determined without regard to extensions of time for filing) is on or 
					before September 1, 1995 and after December 31, 1989. For transactions 
					occurring after December 8, 1994, Sec. Sec. 1.6662-4(g)(1) and 1.6662-
					4(g)(2) (as contained in 26 CFR part 1 revised April 1, 1995) are 
					applied taking into account the changes made to section 6662(d)(2)(C) 
					(relating to the substantial understatement penalty for tax shelter 
					items of corporations) by section 744 of Title VII of the Uruguay Round 
					Agreements Act, Pub. L. 103-465 (108 Stat. 4809).
					    (4) Special rules for reasonable basis. Section 1.6662-3(b)(3) 
					applies to returns filed on or after December 2, 1998.
					    (5) For returns filed after December 31, 2002. Sections 1.6662-3(a), 
					1.6662-3(b)(2) and 1.6662-3(c)(1) (relating to adequate disclosure) 
					apply to returns filed after December 31, 2002, with respect to 
					transactions entered into on or after January 1, 2003. Except as 
					provided in paragraph (d)(1) of this section, Sec. Sec. 1.6662-3(a), 
					1.6662-3(b)(2) and 1.6662-3(c)(1) (as contained in 26 CFR part 1 revised 
					April 1, 2003) apply to returns filed with respect to transactions entered
					into prior to January 1, 2003.
In addition, the IRS has produced a training manual describing its procedures for enforcing these penalties (pdf).
Here are some articles that discuss noncompliance penalties: