Could you tell what exactly you have change? Normally, this shouldn'T cause any proiblems, even without that many nested if/then/else (Although you can turn these trigger into 4 liner)
BIG Edit: Ok, i have taken a look into the map and it seems like i found the issue which is causing this.
Just too much "unit enters a region" events.
I heard that the game compares the position of units with all areas for each enters a region event and needs to decide if it has entered a region it hasn't entered before. So think of it as the game constantly running a "pick every unit in the map and do actions" trigger (although much faster and efficient to what we in our arsenal).
Now, the amount of work the game has to calculate is huge when we have an escessive amount of "enters a region" events in the map. and this is defintetly the case in this map (You got over 200 regions in the map and more of these events).
This is why we can solve the problem, like pick-a-chew with the spawn triggers and gogeta with the ion triggers, by simply deleting some of the "enters a region" events. Because you effectively reduce the amount of checks the game has to do constantly.
This also shows, why the problem only came up now. While constantly working on the map you just overshoot the threshold of these events which causes this behaviour in your newest versions now.
Honestly, i have never seen a map hitting a such huge amount that this happens, and seeing this definetively helps me keeping this in mind when i go for very large projects.
So overall, when you try to condense your events and streamline them, you should be able to have a fluid experience. And there is enough room for improvements on them.
Above that, these action:
Unit - Order (Entering unit) to Attack/move to (Position of (Random unit from (Units in (Playable map area) owned by (Random player from (All allies of Player 1 (Red))))))
leaks threefold: "Units in playable map area" leaks a unit group, "All allies of player 1" a force and "Position of ...." leaks a point.
You can really condense down many of these triggers, like you have in the "Income NEW" trigger.
If you need help, i see if i can do anything for you.