Typically that is caused by the vacuum causing a wave in the media and it hits the curing tunnel (This looks like a headstrike).
Have them try it without any vacuum on the banner and start the material with a couple inches exposed passed the curing tunnel. We also run our banner temps between 205 and 218, just fyi.
Heat is most definitely an issue. We were having sticking problems even with zero vacuum, because the heat would make the (already printed, now down-facing) first side stick to the platen. Dropping down the heat fixed it, but consequently didn't cure the ink properly so we have to do double-sided banners at 8-pass instead of the 6-pass we use for single-sided.
@ the OP, I also recommend to bring them in to the rip separately and have it set to auto print. If they're all the same though, at 2 metres each you could probably afford to set it at qty 2 or even 3 each batch, which will save time between prints and also when it inevitably can't find the line on the second side and you have to search for it.
I hate double-sided banners and am comforted that others have the same issues. To the unenlightened, you can understand the thought of "you're not using any more media, it's just a bit more ink", and hence why industry-standard is to price them at maybe 140% the single-sided price. If I had my way, they'd be at least 200%, because for short runs it does effectively double the media use (with the leading and trailing material) and you can be
sure that if it's going to stuff up, it'll be at 80% through the second side.