For ultimate protection especially if you're putting together a $2,000 ebike with a bunch of other electronic components: http://www.mogotrack.com/products.html
GPS tracking with a $200 unit, no subscription for just theft recovery. SMS alerts for location or speed, logging info, and live online tracking are subscription based, but very cheap.
Nothing is foolproof, but who's going to check for a lowjack before they get it to wherever they're going? =)