Minecraft Version:1.8
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Full Code:

Code (Skript):

1.  
2. command /mmenu:
3.     trigger:
4.         open chest with 5 rows named "Main menu" to player
5.      
6.         # Assault class #
7.         format slot 0 of player with paper named "Assault" to close
8.         if {bc.rifle.%player%} is 0:
9.             format slot 9 of player with wooden pickaxe  named "Rifle 0" to close
10.         if {bc.pistol.%player%} is 0:
11.             format slot 18 of player with wooden shovel named "Pistol 0" to close
12.  
13.         # Recon class #
14.         format slot 2 of player with paper named "Recon" to close
15.         if {bc.sniper.%player%} is 0:
16.             format slot 11 of player with wooden hoe named "Sniper 0" to close
17.         if {bc.pistol.%player%} is 0:
18.             format slot 20 of player with wooden shovel named "Pistol 0" to close      
19.  

the variables are just what leve your weapons are in

Is there a way to give custom durability to tools in GUI/menus? I've been looking all over the docs and forums but just can't seem to find a solution.

Have you tried searching the docs? Yes
Have you tried searching the forums? Yes
What other methods have you tried to fix it?

Code (Skript):

1.  
2. format slot 9 of player with wooden pickaxe of durability 1 named "Rifle 0" to close
3.  

# Edit

Code (Skript):

1.  
2. format slot 9 of player with wooden pickaxe:1 named "Rifle 0" to close
3.  

This works but I cant use a variable to represent the number?

Code (Skript):

1.  
2. format slot 9 of player with wooden pickaxe:{exp.%player%} named "Rifle 0" to close
3.  

that doesn't work?