The opposition parties which had approached the EC on Tuesday wanted five random VVPATs to be counted first so that if there is a problem or a mismatch, all VVPAT slips can be counted before it is too late.
Though EC had made it clear to the parties on Tuesday that the old protocol would continue, its top officials met Wednesday and decided to continue with counting the slips at the end.
The exact reasoning for sticking to the old protocol was not immediately clear.
As per procedure, postal ballots so far were the first to be counted.
The number of service voters stands at 18 lakh and these include personnel of the armed forces, central police force personnel and state police personnel who are posted outside their constituencies.
Diplomats and support staff posted in Indian embassies abroad are also counted as service voters.
Out of the 18 lakh registered voters, 16.49 lakh have sent their postal ballots to their respective returning officers as on May 17.
The exercise of counting postal ballots manually will itself take a couple of hours at least, an EC official said.
"We don't want to hurry up, but at the same time we do not want to slow down the counting either keeping in mind the number of such ballots received. Therefore, the postal ballot count could continue simultaneously with EVM result count," an official said.