Did you exported key file ectually hold the OWNER and ACTIVE keys of your account?
You should do the following:
1) open bitshares 0.9.3 and enter the console
2) wallet_dump_account_private_key <accountname> owner_key
3) wallet_dump_account_private_key <accountname> active_key
4) take those two keys and import tham manually using the key import tool
5) you should now see an account that you can use to import your funds