Corrupted caches with "create web module exploded directory"

Since a few days a have compling problem in my project.
Every time I compile I get the message that my caches are corrupt and a full rebuild starts.
When I de-activate J2EE build settings -> Create web module exploded directory the problem is "solved"
(synchronize exploded directory is on)
the strange thing is that this option has been active for several months and this problem started happening just a week ago

has anyone know a solution for this
or what may cause it

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