Prescription Drug Benefit Equity Act of 2006 - Amends the Public Health Service Act, the Employee Retirement Income Security Act of 1974, the Internal Revenue Code, titles XVIII (Medicare) and XIX (Medicaid) of the Social Security Act, and the Federal Employees Health Benefits Program (FEHBP) to require a group health plan, and a health insurance issuer offering group health insurance coverage, that provide for mail-order prescription drug coverage also to provide non-mail-order prescription drug coverage. Applies such requirement to coverage offered in the individual market in the same manner as it applies to coverage offered in the small or large group market.