I have Waves' InPhase. Not sure I've ever accomplished anything worthwhile with it though.
Only way I've used it (and don't know if there's another way):
Slap it onto a (stereo) track, hit play, and then click on the little "Capture" switch at the bottom of the plugin. That captures a very short piece of the audio and then lets you drag one side or the other until you're in phase (or as close to in phase as you can get as indicated by the "Correlation" meter on the bottom of the plugin). And you can muck about with the filters and delays. But as I said: never accomplished anything useful with it (one of the few Waves plugins that were a waste of my money to be honest).
If you're looking for serious and heavyweight phase alignment tools and metering then there's only one place to look and that's MeldaProduction. Here's a link to their MAutoAlign plugin: https://www.meldaproduction.com/MAutoAlign
(everything with MeldaProduction is serious and heavyweight just by the way).
Second in line (in my opinion) is, of course, iZotope's Insight (for metering).
Voxengo also has some phase alignment tools and meters for the sake of interest. Here's a link to one of them: https://www.voxengo.com/product/pha979/
As to how phase is handled:
Not sure what, or how, you're recording but why are you having phase issues anyway??? Only time I have had phase issues is with recording from guitar amps. micd. up in stereo. The best way of not ending up with phase issues (not to mention comb filtering) is to ensure that you're not recording audio that already has phase issues. In other words: eliminate phase issues before recording.