Nerd mode: Engage
Trek vs. Wars: Trek wins by a landslide.
Trek vs. BSG: Trek wins again. Shields. A viper (or anything for that matter) wouldn't be able to "jump" inside the shields - even if the shields WERE just a bubble, a jump is just a faster-than-light movement. Meaning they wouldn't "jump" into the shields, they'd "slam" into the shields. At lightspeed. It'd leave an awful stain, I'm sure. Not sure if the type of weaponry BSG uses (aside from the nukes) was ever specified in the show, but it's documented Trek lore that lasers are way out of date by the TNG era, obviously by the TOS era as well as phasers are the weapon of choice. They're known to be insanely powerful in comparison to lasers. Lasers. The Star Wars weapon (this is why Star Wars loses without question - no weapons able to penetrate Trek shields). And if BSG uses plasma weapons...that'd presumably put their weapons on par with Klingon weaponry. Without the shielding when trading blows, however...it puts them at a serious disadvantage. Keep in mind that regardless of the Trek faction BSG were to go up against, they're just a handful of ships (with only the Galactica being built specifically for war) struggling through space, fighting their lone enemy the Cylons. They'd be going up against an armada that have spent years developing and adapting to things like the Borg (fuck it if they show up to the fight), Federation, Klingons, Romulans, Ferengi, Jem'Hadar, Cardassians, Tholians (remember them?) etc. So on top of the technology handicap, they'd be at a HUGE tactical disadvantage not having other enemies to learn from or time or resources to develop countermeasures. BSG would be fucked in short order, as would Star Wars.
Nerd mode: Disengage