OK, we'll start by playing 20 questions ... since you REALLY haven't given anyone enough info to go on.
1) What type of account are you talking about? Bank? Credit? Loan? Investment?
2) Do payments/deposits into the account show?
3) Has the register been sorted in some manner other than date ... so the the "missing" amounts are just not appearing where you expect them?
4) If it's an investment account, are there placeholders present (which suppress the effect of cash transactions)?
5) What EXACTLY do you mean by the balances don't show up "In Scheduled Transactions"? Balances NEVER show up in the Scheduled Transactions list ... only the transactions show.
6) What version of Q are you using?
7) What operating system?
(I've run out of questions before I got to 20).
db