[lakeroadster]

Everyone with a lowered truck has experienced this unless they have modified the stock swing arm configuration. It's just the nature of the beast due to the swing arm design.

On a swing arm truck the more you lower the truck the farther back the tire will be. Think about it. The rear end swings on a radius based on the length of the swing arms.

If it really bugs ya you could:
A) shorten the track arms,
B) relocate the upper shock mounts,
C) relocate the upper spring mounts,
D) shorten the driveshaft.

Or, if you are a body working guru, relocate the wheel opening on the fender.

Or you can adopt the philosophy of:

"What therefore General Motors has joined together, let no one put asunder."