PAYROLL dept. will be the only one holding you back. They need to calculate every Fils you may owe them, before they calculate your end of service benefits. And only after that, they start on the Visa Cancellation process.(UAE and all US VISA issued under Emirates request).
EOS staff are very helpful in guiding you through the Leaving Process.
You are Lucky if you get your Passport and Provident Fund Cheque exactly at your LDS (last day of Service). Normally, a delay on Visa cancellation takes an extra 2 days. The company provides the pilot 2 nights FREE hotel Accomodation at the Holiday Inn express besides EGHQ after the LDS.
About the Repat Ticket, you can always rebooked it later as you like. but you need to exit the UAE 30 day after your Visa is cancelled.
With your LDS set and you have made up your mind how to claim your PROVIDENT. If by cash, I suggest you visit the NBD branch at the Mezzanine and set a date to Encash your cheque specially with a big amount, if over a million dirhams. They might not have enough CASH in one day, specially if there are 2 pilots encashing at the same time.