I have a 98 with a hard top.
I get quite a bit of wind noise at high speeds too,
OR if it's just plain windy outside.
Keep in mind that it's a removable top.
It's normal, don't worry about it.
My rear window seal leaks too.
Just at the top of the glass.
The hard top and seals are in great shape,
just not sealing up properly at that one point for whatever reason.
I've never figured out.
Pisses me off.
You might try Quadratec.com or 4WD.com for some new seals.