Tepastè was talking about the tooltip of the prophecies where it only shows the negative effects.
The positive effects are shown while selecting a prophecy to place on the tablet.

All of the prophecies are something like add more sharks or slow down void swim speed. Nothing helpful just detriments. Are there any that help you?

I don't understand the question exactly, but I haven't played the game for a while either.
I don't know what you mean by "Beneficial prophecy".
You generally get the bonus when you equip the statues at the front of your train, and then in the next void instance (the statues then disappear).

Does running the Prophecy grant the bonus or do you need a Beneficial prophecy. If so I have never received a beneficial prophecy.

thank you, I have added

I found one that adds +1 to the number of sharks in the void under disadvantages.