Checkpoints as a cognitive security blanket against doomsday reorgs will likely stay, but we could update them less frequently, with a more regimented process, and perhaps change how nodes respond to them (e.g. a conflicting chain becoming longer making all nodes go into a safemode where they regard everything new as unconfirmed, process no transactions, and discourage any new blocks that process transactions allowing for a public resolution of the "impossible event", rather than directly coercing the consensus).