The tubeless plugs work just fine with a tyre with latex in, no need to deflate the tyre, let alone take it off the rim even. I’ve been using them for years and several of my tyres have plugs in with no issue – I used to live on the South Downs and got plenty of flint cuts too large for latex to heal.
The patches, designed to go inside your tyre, are a pain in the ass, require a dry tyre and removal of the tyre from the rim to heal a hole. Not trailside friendly.
I’d recommend using latex for 99% of holes and taking plugs in your repair kit with you for the odd hole, once or twice a year, that won’t heal.