Well, honestly you have a few issues
First the spacer lift and using stock springs and shocks which are weak, and while flex is good, spacers do not give a good flex, well too much which is bad
Second bumpstops, for every inch of lift you have one inch of new spacer
for instance in the rear we use hockey pucks which are one inch think each bolted down to the lower spring perch
On most say 2.5 inch lifts we do at least 2 inches of extra bumpstop
Third, your wheels, they stick out further than what most run, too little backspacing
while many like the look they are out far enough that you have to run " extra " bumpstop to keep them from rubbing
maybe 3 or more hockey pucks which then does away with any extra flex
To make sure remove shock on one side, with wheel / tire back on jack up that side and right before it hits the flare measure between lower spring perch and up to stock bumpstop, that is the amount of bumpstop you need extra
Not sure of the backspacing or width of your wheels but that also is part of your problem
With say an 8 inch wide wheel with 5 inches of backspacing you can stuff the tire up into the wheelwell
But that same 8 inch wide tire and 3.5-4 inches of backspacing will cause it to rub badly on the flares etc as you have found out
People get tired of me saying if you build it right from the get go it will work great
But with a good lift , from say OME, the right amount of bumpstop, the right width wheels with correct backspacing you will have no issues