Hogwash. You must protect your batteries better than that if you are using RC lico soft packs. The round cell packs may be protected enough by the bag, the padding on it is pretty good.
Just because you didn't scuff your bag on the rail tracks, doesn't mean you wont next time.
If you don't want to make actual boxes for each section of battery, it won't be hard to put some Masonite, coroplast or something just a bit more dent resistant on the sides of the pack. Just cut to fit, and slip them in to both sides.
Personally, I shudder to think of pouch lipo with the internal bag straps cutting into them. Hard case packs would be fine of course.
But other than that warning to users of flamey easily dinged RC packs, I give the EM3ev bag a huge thumbs up. Among other things, I got much better cold weather performance from my batteries this year. My old metal box stuck in the frame let the batteries get very cold, and it rattled. The frame bag, a proper one built for batteries, is really nice.