| Rank | LW | Release
| Gross | %± LW | Theaters | Change | Average | Total Gross | Weeks | Distributor
| New This Week
| Estimated
|
|---|
| 1 | 1 | Ponyo | $5,359,035 | -32.2% | 481 | - | $11,141 | $106,482,882 | 6 | Toho | false | false |
| 2 | - | Detroit Metal City | $3,266,386 | - | 241 | - | $13,553 | $3,266,386 | 1 | Toho | true | false |
| 3 | - | Sex and the City | $2,652,157 | - | 295 | - | $8,990 | $2,652,157 | 1 | Gaga | true | false |
| 4 | 2 | The Mummy: Tomb of the Dragon Emperor | $2,248,053 | -68.4% | 547 | -1 | $4,109 | $13,182,160 | 2 | Toho-Towa | false | false |
| 5 | 4 | Pokémon: Giratina and the Sky Warrior | $1,110,545 | -31.2% | 359 | - | $3,093 | $40,195,614 | 6 | Toho | false | false |
| 6 | - | Star Wars: The Clone Wars | $1,024,412 | - | 473 | - | $2,165 | $1,024,412 | 1 | Warner Bros. | true | false |
| 7 | 5 | The Dark Knight | $803,788 | -50.2% | 301 | -159 | $2,670 | $11,220,329 | 3 | Warner Bros. | false | false |
| 8 | 6 | Boys Over Flowers: Final | $756,781 | -40.8% | 316 | - | $2,394 | $67,528,503 | 9 | Toho | false | false |
| 9 | 8 | Kamen Rider Kiva: King of the Castle in the Demon World | $642,152 | -36.6% | 285 | -1 | $2,253 | $6,452,401 | 3 | Toei Company | false | false |
| 10 | 7 | Kung Fu Panda | $640,285 | -41.4% | 366 | -72 | $1,749 | $15,491,126 | 5 | Asmik Ace Entertainment | false | false |
| 11 | 3 | What Happens in Vegas | $548,652 | -67.6% | 191 | - | $2,872 | $3,545,401 | 2 | 20th Century Fox International | false | false |
| 12 | 9 | Naruto Shippuden: The Movie - Bonds | $423,389 | -45.4% | 252 | - | $1,680 | $9,241,321 | 4 | Toho | false | false |
| 13 | - | The Last Game: Waseda vs. Keiko | $288,729 | - | 138 | - | $2,092 | $288,729 | 1 | Cine Quanon | true | false |
| 14 | 10 | The Sky Crawlers | $267,931 | -41% | 210 | -3 | $1,275 | $5,232,871 | 4 | Warner Bros. | false | false |
| 15 | 12 | Kitaro and the Millennium Curse | $195,941 | -51.3% | 309 | -2 | $634 | $12,438,461 | 7 | Shochiku | false | false |
| 16 | 13 | Indiana Jones and the Kingdom of the Crystal Skull | $185,387 | -51.7% | 307 | -116 | $603 | $52,439,080 | 10 | Paramount Pictures International | false | false |
| 17 | 14 | The Forbidden Kingdom | $99,022 | -62.9% | 162 | -31 | $611 | $6,317,660 | 5 | Shochiku | false | false |
| 18 | 15 | Kung Fu Dunk | $66,759 | -56.7% | 125 | +21 | $534 | $353,043 | 2 | Herald Film Company | false | false |
| 19 | 16 | Anpanman: The Secret of Fairy Rin-Rin | $64,555 | -42.9% | 81 | -54 | $796 | $3,073,278 | 7 | Tokyo Theatres | false | false |
| 20 | 11 | The Happening | $58,714 | -85.6% | 79 | -230 | $743 | $11,210,974 | 5 | 20th Century Fox International | false | false |
| 21 | 20 | Across the Universe | $43,942 | +18% | 19 | +6 | $2,312 | $267,101 | 3 | Tohokushinsha Film Corporation (TFC) | false | false |
| 22 | 17 | The Magic Hour | $43,904 | -57.2% | 118 | -94 | $372 | $35,723,111 | 12 | Toho | false | false |
| 23 | 19 | One Million Yen Girl 2008 Re-release | $28,933 | -48.1% | 15 | -5 | $1,928 | $1,631,041 | 6 | Nikkatsu | false | false |
| 24 | 18 | The Incredible Hulk | $25,240 | -63.6% | 72 | -89 | $350 | $1,609,594 | 4 | Sony Pictures Releasing | false | false |
| 25 | 25 | Starship Troopers 3: Marauder | $1,005 | -87.4% | 6 | -3 | $167 | $404,997 | 6 | Sony Pictures Releasing | false | false |
| 26 | 26 | Newcastle | $74 | -57.7% | 1 | - | $74 | $114,434 | 12 | Sony Pictures Releasing | false | false |
