Besides the LECOM-Br campus only being around for 3 years so far, I would say that, in my opinion, probably the biggest difference that should impact your decision would be the curriculum difference. LECOM here is strictly PBL, while NOVA is, as far as I know, still lecture based for the most part.
If you're considering LECOM then do some research on PBL and decide if it's something that you work for you or not. Besides that you'll be getting a great education at both. NOVA has been around longer, but LECOM is continuing to build up relationships with health providers in the Bradenton, Sarasota, St. Pete, and Tampa areas, so there is a nice mixture of hospitals/clinics to rotate at as well.
I personally also have friends and family on this side of Florida so that was an important factor for me.