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You question on Afterburner is good, and I do understand the need of this scenario. I already have that one on my list of things to implement, because it makes perfect sense. Today you can still use the command line parameters to the Claymore miners for example, to do GPU clocking operations on start. However, this can get complex with command line parameters when you start using other mining software as well, and they all have different or no support for clocking. This is the reason why it makes sense to define "GPU Clock Profiles" in Awesome Miner in the future.
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Another idea maybe for now, I haven't tried it and maybe if anyone is doing this they can post their ideas too, but I think there is a command line tool for NVidia cards... so maybe we can create a batch file with the commands for that tool to set the cards to our prefered mem/core/power settings, and link that .bat file to the particular mining profile as a .bat to run before starting the miner? Would this work?