There's no standard for anything at the root level called resources
.
src/main/resources
is normally where you put non-Java artifacts that should be moved into the normal package hierarchy, like XML config files loaded as classpath resources.
It's impossible to help much beyond that, other than to say "check your Maven file to see if anything actually references those files", particularly if anything generates files to there, or moves them there as part of an assembly process, but again, that would be non-standard Maven usage.
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