Best way to remove nipples on water pump?

I wanted to refurbish and repaint my 383 BB water pump. I also have to remove one of the heater hose nipple connections to get one of the water pump bolts out. While I’m doing that I figured I’d replace the nipples with new ones. Is there a tool to remove these nipples without crushing or damaging them?

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"Best way to remove nipples on water pump?"
The same way you remove them from people.
Twist em off.:D

Seriously though, it looks like you soaked them already and that's good.
Heat helps a lot (a propane torch is about as minimal as you can use, but does help)
Even though those have the cutouts for a tool those usually just strip out if the tubes have been in there for years.
Most end up having to use a pipe wrench, and even sometimes collapse the tube or break it off in the water pump doing it.

Our member @Rainy Day Auto made a tool that could work if they are not too rusted in there.

Start with the most non intrusive methods first and work you way up till you get them out.