I haven't had any problems mixing the two. But I have a Featherweight and she is not picky about fabrics or threads as I have heard that some of the newer fancier machines can be.
I do prefer to keep the look of my fabrics similar so I generally use similar style prints as the other fabrics alongside batiks. But that is personal preference for the designs I've used up to now. Never know what I might do next time if the spirit moves in another direction! Lol.