for me it was more about trigger box placement and making the box big enough. For me text is also visible all the time, so it only disappears after I interacted with the message. So your “press E” text probably appears/disappears when the box is crossed, not after the player presses E.
You say components overlap, maybe you can put them all together inside the trigger box element? so they would not overlap, but will be a group of elements inside the trigger box item. I did it like that: 
There’s also different way to go about triggers, there’s trigger volume, trigger box and trigger area or something. They work differently and you can try to replace them. Or also it depends on what you chose, “on begin/end overlap” or similar options:

















that was fun until I got caught into a story tomb (please add skip/exit button).