Whenever you equip a tool in ROBLOX, ClickDetectors suddenly don't register anymore (until you un-equip the tool again). So my question is, how do I get it so that ClickDetectors will work when a tool is equipped?
This functionality isn't available.
Either accomplish what you are trying to do without a tool (and use PlayerMouse for everything, perhaps?), or implement the clicking as a part of the tool.
Although I'm not certain, you may also be able to use the PlayerMouse while tools are equipped. I am not so sure about that, however. If you can, then you could implement all ClickDetector things through that instead.