Having flown Flybe twice in the last week, I can definitely say alignment with VS seems non-existent at this point.
On Thursday I flew them from LHR-EDI. On Google flights I saw that tickets could be purchased from VS, and prices listed to buy through VS were less than buying from Flybe directly. However, when trying to click the link to buy, I got a message saying that the ticket had just went up in price. I tried a couple times over the next few days--always to the same result. Somehow there is a disconnect between the price listed on Google and the actual price VS is charging. Plus there is no way to get VS miles for Flybe flights at this point.
Yesterday Delta ended up rerouting me on a combined Flybe (VS codeshare) and VS routing. Transferring from the Flybe flight in LHR terminal 2 to the VS flight in terminal 3 was time consuming and slightly painful, with air traffic delays, bus gates, shuttle transfer, reclearing security, etc.