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Hi brettcasper,
Welcome to the UNIX & Linux Forums. When starting a thread here it always helps if you tell us what operating system and shell you're using so we know what capabilities your system...

Here is an awk approach:-
awk -F'~' '
NR == FNR {
if ( FNR > 1 )
A_F1[$2] = $3 FS $4
next
}
FNR > 1 {
...