What I do with my 300gpd ro is this, I've noticed the same thing with my ro as you have, when you 1st start it up the tds rise quite high and then settle down a few mins later. I just start it up with the pure feed disconnected and left to go to waste, while the tds settles I fill up my trailer tanks, by the time the trailer's full the tds has settled down to 000-001, so I re-connect the pure feed to my water butts.
I guess I could leave it and the higher tds would be diluted by the lower, but for the sake of a few mins I'd rather keep the tds in the water butts as low as poss and put less tds through my di vessel.
Tim