@v-magwar I tried doing it again to see why and thought of anything that could've made it do it.
But the same things wasn't happening, it was normal everytime I tested it.
I don't know what it was. The crystals were doing their thing and I died and the portal was empty and then the crystals didn't work anymore.
@WayOfBee Well because of the way chunks work as well, the negative coordinates let the effect go one block more than the positive coordinates. On past worlds the whole area for a level 4 beacon have been 50x51 blocks technically. On this beacon I have 2 stacks and 36 emerald blocks which is 164 blocks needed. Inside the jungle planks is where the AOE works. The black outline is where the effect is supposed to go but it won't. Right now the beacon isn't in a square. It's a random polygon