Lost files when upgrade OJS 3.2.1-4 to 3.3.0-16

Describe the issue or problem
I try to upgrade OJS 2.4.8 to OJS 3.3.0-16, but some files do not show in OJS 3.3.0-16.

What application are you using?
OJS 3.3.0-16
PHP version: 7.3.33 Development
MySQL version: 5.7

Additional information

All steps seem successful with 2.4.8 to 3.2.1-4 (I have to check a random article and seems OK).

but when I upgrade from 3.2.1-4 to 3.3.0-16, I check this link again:

Some files were lost, I have checked some articles and similar ones.

The log when I upgrade from 3.2.1-4 to 3.3.0-16:

# php -d memory_limit=2048M tools/upgrade.php upgrade > upgrade_log.txt
WARNING: The NavigationMenu (ContextId: 3, Title: User Navigation Menu, Area: user) will be skipped because the specified area has already a NavigationMenu attached.
...
A submission file was expected but not found at journals/3/articles/2373/submission/2373-2-8534-3-2-20220710.txt.
A submission file was expected but not found at journals/4/articles/3420/submission/review/3420-13-16423-2-4-20240520.docx.
A submission file was expected but not found at journals/3/articles/3429/submission/review/3429-1-16531-2-4-20240520.docx.
A submission file was expected but not found at journals/4/articles/3431/submission/review/3431-13-16536-2-4-20240520.docx.
A submission file was expected but not found at journals/8/articles/3432/submission/review/3432-37-16553-2-4-20240520.docx.
A submission file was expected but not found at journals/3/articles/3433/submission/review/3433-1-16556-2-4-20240520.docx.
A submission file was expected but not found at journals/4/articles/3386/submission/review/attachment/3386-13-16559-1-5-20240520.docx.
A submission file was expected but not found at journals/4/articles/3386/attachment/3386-13-16560-1-13-20240520.docx.

and upgrade_log.txt:

2024-05-27 03:16:04 [pre-install]
2024-05-27 03:16:04 [load: upgrade.xml]
2024-05-27 03:16:04 [version: 3.3.0.16]
2024-05-27 03:16:04 [code: Installer Installer::checkPhpVersion]
2024-05-27 03:16:04 [code: Installer Installer::installDefaultNavigationMenus]
2024-05-27 03:16:04 [code: Installer Installer::migrateStaticPagesToNavigationMenuItems]
2024-05-27 03:16:04 [migration: PKPv3_3_0UpgradeMigration]
2024-05-27 03:17:29 [migration: OJSv3_3_0UpgradeMigration]
2024-05-27 03:17:30 [note: docs/release-notes/README-3.3.0]
2024-05-27 03:17:30 [code: Installer Installer::addPluginVersions]
2024-05-27 03:17:30 [post-install]

Release Notes
...

I have checked table submission_files in OJS 3.2.1-4, and it returns 20247 records.
But in OJS 3.3.0-16, it returns only 15278 records.

I don’t have any idea, can someone help me?