They'd have to put in a really good bid to convince Paramount/whoever that blurring the Trek/Wars distinction even more is a good idea.
Blurring the distinction just because they're from the same publisher? That doesn't make sense. And it wouldn't be the first time that the same comics publisher has held both franchises' licenses at the same time; Marvel published Star Wars
comics from 1977-86 and Star Trek
comics from 1979-82. Not to mention that Del Rey published the Star Wars
novelization and Splinter of the Mind's Eye
by Alan Dean Foster in the same years that it published Star Trek Log Eight
and Log Ten
by Alan Dean Foster. Plus Bantam has held both the Trek and Wars licenses, though not at the same time (unless you count Bantam's right to reprint its old Trek novels).
Besides, I don't think you're grasping the way businesspeople think. Generally it's seen as a good
thing if your product gets confused with another property that's extremely profitable. Heck, that's The Asylum's entire business plan.