Don't forget PatchControl to keep all those patches under control.
StrigReq is a useful patch to get a file requester for some old progs or even WB execute prompt (obviously a lot of other things fix this inconvenience in WB).
What about debugging tools like CyberGuard, SegTracker, Sashimi.
Help you find things you never new and why they misbehave.
WBStartup++ is not a hack as such, but helps keep the WBStratup folder tidy and select tools you need to run on startup or disable temporary.
AsyncWB maked WB multithreaded.
FullPalette - was it mentioned ? Essential for pallet tuning.
CMQ - the speedup patch for mem copy routines
MouseMeter - measure your travelling distances