I want each clone of an object to have it's own value, but I don't want it to be visual. I've tried using variables but I'm just not sure.

Explain the question in depth more. If your trying to create a clown with your own distinctive data, you might want to create another sprite.

in my game, I have these clones coming in that you have to time when you press a key, so they disappear in time, but the issue is, when i hit the key, multiple clones that are close enough will also disappear, but for each one i want to give it it's own input to disappear. I have list that says when the clone should appear, so im thinking if i can get it's value as the same as it's number in the list, then I can have it disappear when it has the right input.

Fun fact: if you set a variable as “for this sprite only,” you can use it to give clones their own specific values. Maybe try that?

Use for this sprite only on variable and then use set the value of that variable under the when I start as a clone script.

The easiest way to edit the values of a clone

when green flag clicked
delete (all v) of [Clone X v]//add more lists if you want, for example clone size, clone costume etc.
delete (all v) of [Clone Y v]
delete (all v) of [Clone Dir v]
set [Clone ID v] to [0]//make sure this variable is local
repeat (N :: #8F939F)//N is the number of clones you want
change [Clone ID v] by [1]
add [0] to [Clone X v]//make sure to add your new lists here too
add [0] to [Clone Y v]
add [0] to [Clone Dir v]
create clone of [myself v]
end

when I start as a clone
forever
go to x:(item (Clone ID) of [Clone X v] :: list) y:(item (Clone ID) of [Clone Y v] :: list)
point in direction (item (Clone ID) of [Clone Dir v] :: list)

//add the values of the clones you want to the lists. You can change these easily at anytime.
end