The liner isn't the issue here, and offset really isn't eaither...the issue is if you plan to offroad, you need to hammer down the pinch weld BEHIND the liner, and trim off some of the fender behind the flare and some of the flare. If you don't plan to offroad, ever, then you are fine, you will have some rubbing on the liner, but you won't cause any damage.
Here are the pics of the pinch weld once you remove the flare and liner. I will get pics of the cut of fender and flare tomorrow, i have to take it apart, since i got wrapped up in just working on my truck Saturday.
pic1: This shows the pinch weld "protector", so if you did come in contact with the pinch weld, this would give a smooth surface to protect the tire...this get unbolted (see orange arrows) and scrap it.
pic2: the red line indicate relief cuts, the red circle shows an angle cut. Then beat down the pinch weld with a really big sledge.
pic2: The orange shows what i trimmed off on the flare, the orange circle shows the rear liner screw ole i kept, along with one near the front, the rest were cut off.
pic3: Shows towards the front of the truck, notice the flare has been trimmed, no more holes. The flare is still snugly attached with just the pinch clips into the fender. Also notice the orange circle, it shows the front hole for the liner in the fender. also note the cut in the fender above the bolt.
pic4: the rear of the wheel well. no holes in the flare, and the orange circle highlights the rear hole for the liner to attach to the remaining part of the fender (see the angled cut, thats whats left of the fender).
I'll get more pics of the cut fender, which is under the flare tomorrow. Hope this helps.
So, you trimmed off what about 1/2inch?