“It’s clear that we’re not going to be ready for the 10 November,” said Ms Johansson, adding: “We will be going for a phased approach, step by step.”
The EU Justice and Home Affairs Council will meet next week to discuss bringing it in.
The Entry Exit System (EES) means non-EU citizens, including people from the UK, need to register biometric data at the EU border to get in rather than stamping passports.
Doing so will make a digital record linking passports to biometric data.
The idea is that passengers will be given hand held devices, so they can register their details in their cars.
A spokesperson for the German interior ministry told the Reuters news agency the three countries were not ready to bring in the system because the EU agency in charge of it, EU-Lisa, had not yet made it stable enough.
The French interior ministry told Reuters EES must be prepared properly.
