This is why I said don't be suprised if Ted Thompson drafted a QB.
While you are scratching your head Ted is envisioning the team 3 years from now.
Flynn is in the final year of a 4 year deal. As a 7th round pick he has already brought value to the team. What can happen?
1) Flynn signs an entesnsion and remains a valuable back up QB.
Ted can trade him, later.
2) Next year Flynn signs elsewhere next offseason depending on free agency rules. Ted gets a compensatory pick which is more than he paid for Flynn.
3) Ted trades him to a QB starved team this year.
There are a lot of factors Flynn's attitude, compensatory picks in CBA, how trades are handled under the cap if there is a cap, how good are the offers.
Ted is right is is too early to discuss it, but having a 7th rounder produce for a few years and then becoming a 1st rounder sure helps building a team.