I cant see why not. Its YOUR Jeep after all. So do what you want with it. Thats the great things about Jeeps, there are endless ways to make it yours.
I gave up caring about resale and just build it the way I want it to be. Its not like the MW3 editions are really that rare (no offense by any means), so i doubt you'll be losing much value by modding it compared to modding any other models.
2014 granite JKUR 6spd, JCR dagger w/stinger, warn m8000s, teraflex tire carrier hinge, spiderwebshade, dirty dog 4x4 netting, 2.5" RK x-factor w/bilsteins, diy rock lights, sPOD, black box 50" light bar, JCR skids, dynomax comp exhaust, locker override, KOR front driveshaft. 37x12.5 Cooper STTs on 17x9 XD Addicts, CC ultra rear bumper, VKS Sliders, Trek Armor seat covers, Cobra 75 CB