I like that the newest update has added some more structure to prestiging, along with the change to the embryo blessing that adds some initial currency to upgrade cards.
However, as someone who has been hard resetting with each update to get a feel for the new progression...
1. It kinda sucks that both deck selection and transient runes (aka the two blessings that meaningfully change how you play) are locked into the "late game". I know the actual game's going to be quite a bit longer (such is the nature of incremental games), but having to play a bunch of rounds to unlock two of the more interesting mechanics feels a bit bad.
2. I hate to say this, but managing your relics is really boring. Don't get me wrong, they're strong and do their job, but I find myself looking at the relic screen, going "I don't care, I guess I'll equip this one?" and completely forgetting that they exist. Maybe they just need some added visual juice? To use Chisel as an example, maybe the game could show the 50% increase right on the cards and that text could be all red and glowy to show that it was doing something.
3. I'm kinda surprised that there isn't a blessing that does the standard incremental thing and automates card upgrades? I'd love a blessing that, say, made it so void tokens and embryos spent on one Spirit got spent on all of them, or one that made it so void tokens spent on runes also get spent on upgrading the card's base light gain.
4. I'd also really like a blessing that boosts hand size. It could be as basic as "you draw one extra card per turn" or something more game-y like "once per trial, you can discard a card to draw two cards" that you can hook other upgrades onto.