I'm going to be ordering my Boyd Rouleur wheelset that will come with the shimano free hub this week. When I get them in I will be taking my current wheelset down along with my Boyd set and having them swap my Ultegra 6700 casset over. After that is done, should I expect it to need some adjusting or should it line up the same with no issues and be good to go?

It should line up perfectly. In fact, you don't even need a shop, just a chainwhip and the right tool for your cassette. I'd do it myself, if I were you, unless it's included in the price.

I just dont have the tools to do so. my LBS said it would only be $5 to swap which I figured is probably cheaper than the tools, not to mention, would it be worth the cost for the amount of times I would actually use it? (maybe I would use it more than I think??)

You may have to tweak the barrel adjuster on the rear derailleur a bit either in or out to fine tune the shifting. Different brand hubs have slightly different cassette body dimensions from the outer locknut. Or you may get lucky. My race wheels & training wheels are 3/4 of a turn different.

+1

Probably should take your bike just in case. They can make sure the shifting is correct after the switch.