I hope that you don't play:
1) Games that used the shared save system, to pass from a chapter to the other, like by example
Rebirth, and that those games aren't precisely at a chapter change. Because if it's the case, you also lost everything that will permit to smoothly pass to the said new chapter.
2) Games made with the last (7.6.1 & 8.1.1) version of Ren'Py, because you also lost the security token, and I'm not sure to what extend it's a consistent value that will be identically generated back. Because if it isn't a consistent value, then all your saves for those games will now be seen as presenting a security issue.
Whatever the OS, there's two folders in the Ren'Py saves directory that should
never be removed, it's "persistent" and "tokens". If you are also using Ren'Py for coding, include the "backups" folder in this list.