while( s0 != '|' || s1 != '|' ){//terminates if '|' is received
This will only stop the loop when you receive "||", not a single "|" as the comment suggests. So one of the two is wrong and needs to be corrected.
if(HWSERIAL.available() == 0 && millis() - Timer > 1){
You should also seriously look into why the message gets lost, as that shouldn't happen to begin with. I bet that device of yours will have some kind of serial buffer.