It does not hurt to remove a barreled action from a fibreglas bedded stock... assuming that release compound was used in the first place to prevent the action from being permanently "glued" into the wood! Some bedding jobs are permanently assembled, and it's a real BEAR to take them apart without destroying the wood!
A gunsmith will normally remove the bedded barreled action at least once to clean up and finish the stock, or to trim the bedding compound when the job is done. All it should take is a few careful raps with a plastic-tipped hammer or a wooden mallet to loosen it once the action screws are removed.
When you reassemble, make sure there are no bits of debris, dirt, loose bedding clumps, etc that prevent reassembly. It will fit as tightly as it was before you disassembled it, and accuracy will not be changed.