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So that's worth checking. Ditto if you have software that imposes frame-rate caps (video card driver's v-sync; customisable caps; RTSS, etc) that you might've accidentally fat-fingered on the wrong profile.
Video card driver update could have messed full-screen default settings or for a WoWS profile specifically, which would explain the framerate changing when windowed.
Scanning the hard drive that the game is installed to might be an option if it's access time is becoming compromised; also reverify integrity of game files if it is corrupted.
Viruses are certainly an outside possibility, hogging resources when you're full-screened. Ditto for any software that changes its behaviour (autosilence) when it detects a fullscreen app running.
Another game not being impacted doesn't necessarily mean anything: If the problem's with exclusive fullscreen mode, then another game that's running in borderless fullscreen window mode won't trigger it; game on another HDD won't trigger it if the problem's hard drive related; game with another video card driver profile won't trigger an issue if the problem's with the video card driver; etc etc.
But yeah - first port of call would be scandisk, reverify files, defrag.
That fails, Start button > Resource Monitor and see what resources, if any, are uniquely getting bottle necked when you run WoWS.
That will give you a lead as to whether the problem is related to your specific installation of the game, or how it's interacting with your system.