- CD Single (Australia)
- "Come Clean" (Radio Edit) – 3:35
- "Come Clean" (Rhythmic Mix) – 3:31
- "Come Clean" (Acoustic Version) – 3:21
- Hilary Speaks – 6:14
- "Come Clean" (Music Video) – 3:33
- CD Single (Canada)
- "Come Clean" (Radio Edit) – 3:35
- "Come Clean" (Rhythmic Mix) – 3:33
- CD Single 1 (UK)
- "Come Clean" (Radio Edit) – 3:35
- "Why Not" – 2:59
- "Come Clean" (Music Video) – 3:33
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- CD Single 2 (UK)
- "Come Clean" (Radio Edit) – 3:35
- "Come Clean" (Joe Mermudez & Josh Harris Main Mix) – 3:35
- "Come Clean" (Cut to the Chase Club Mix - Radio Edit) – 3:29
- "Come Clean" (Music Video) – 3:33
- The Remixes (UK)
- "Come Clean" (Cut to the Chase Club Mix - Radio Edit) – 3:29
- "Come Clean" (Flood Remix Radio) – 3:44
- "Come Clean" (Joe Bermudez & Josh Harris Main Mix) – 3:35
- "Come Clean" (Cut to the Chase Club Extended Club Mix) – 5:31
- "Come Clean" (Chris Cox Flood Remix) – 9:42
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