The arrangement struck by the neighbours on Thursday raised the prospect of at least 700,000 Rohingya Muslims living in overcrowded camps in southeastern Bangladesh being returned to Myanmar.
But at least 3,000 refugees have crossed since then, the United Nations said in its latest report on the crisis, with guards at check-posts along the frontier also reporting a largely uninterrupted flow of newcomers.
"The number of arrivals has declined, but it has not stopped," Bangladesh border guard commander Lieutenant Colonel S.M. Ariful Islam told AFP.
An estimated 624,000 Rohingya have fled a military crackdown in Myanmar since August described by UN and US authorities as ethnic cleansing.
The repatriation agreement applies to Rohingya refugees living in Bangladesh who fled Myanmar in two major outbreaks of violence since October 2016.
It does not extend to an estimated 200,000 Rohingya refugees who were living in Bangladesh prior to that date.
The UN refugee agency UNHCR has raised concerns over the terms of the arrangement, saying conditions for the safe return of the Rohingya were not yet in place.
Rohingya leaders have said they will not return to Myanmar unless they are recognised as citizens with full rights and ensured protection from violence.
Myanmar does no recognise the Rohingya, denying them citizenship and restricting their movement.
The UNHCR says any repatriation deal must include "the informed consent of refugees".
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