Plugin has been updated, btw there are a few issues with the report.
1- Entity "ghost", this was something i can't replicate, can you send a list of plugins that are you using? Maybe it's a conflict with other plugin.
By default, this is strange, because if you break the foundation, everything on top of it should break as well (it's game logic). The plugin only interacts with the entity you've broken, not with the others.
2- Fixed.
3- Fixed.
4- Fixed. I suppose this is related to some objects can't be removed using symmetry, it's now fixed. All objects will spawn using symmetry, including water catcher