If you kill an enemy on a coaligned altar, you get a small alignment bonus and a message “Shimmering droplets of blood ascend into the realm of [deity]!” (Not specified what it should say if the dying monster doesn’t have blood.)

If in a variant that has Secespita, making the killing blow with that also decreases prayer timeout by a few turns.

Wielding Mjollnir (or potentially any artifact) after it was gifted by your god requires the god to spend constant divine attention on powering it. In game terms, this means that your prayer timeout will never drop below some minimum of a few hundred turns, because the god will not take kindly to requests for more assistance after they are already constantly giving you it.

Remove Stormbringer’s automatic attacking of peaceful monsters and instead incentivize attacking peaceful monsters by giving the hero some benefit, such as lowering prayer timeout, whenever attacking a peaceful monster with it.

If you get hit by something reflectable, have no other source of reflection, and prayer timeout is 0, your god may rarely intervene (“But it reflects somehow!”). This could either increase timeout a smallish amount or not increase it. Does not break atheist conduct.

Alternatively, instead of “using” prayer timeout, automatically spend a couple points of divine protection. Because you would have had to break atheist to get that, the atheist problem doesn’t apply.