w/ regular flying lines.. you need to get this out. weakens the lines .. it will break at that point.
w/ q-line you can leave it.
to work out a knot that seems un-workable.. you can try getting the line wet by soaking that section in water for a while and then GENTLY tap the know with a hammer to flatten it out.. it works .. done it a few times.. seems impossible at first but by gently working it, it will relax enough to work out.. be careful not to ruin the fibers.
check out
www.kiteforum.com and do a search on knots.. some good tips..