Presiding officer Ken Macintosh said the flag will come down at 11pm on January 31, when the UK leaves the EU.
The European Union (Withdrawal Agreement) Bill was passed by 330 votes to 231.
Constitutional relations secretary Mike Russell will take part in talks with UK Government ministers and counterparts from the Welsh administration.
MSPs voted to reject the UK Bill by votes to 92 votes to 29.
MSPs are set to debate whether to give consent to the agreement struck by Prime Minister Boris Johnson with the EU.
Scottish party leaders delivered their New Year messages ahead of the start of a new decade.
Data released to the Scottish Liberal Democrats under freedom of information legislation has been branded 'miserable'.
It will recommend Holyrood does not consent to the UK Government's Withdrawal Agreement Bill.
As Boris Johnson's government lays out its legislative agenda, it dismisses a 2020 indyref as a 'damaging distraction'.
The Ross, Skye and Lochaber MP has been unanimously re-appointed at the parliamentary party's AGM.
The latest economic figures show Scotland has returned to growth, with GDP rising by 0.3% in the last quarter.
The First Minister said there is 'growing cross-party recognition' the question of a second vote should not be decided at Westminster.
The First Minister will invite people in Scotland to come together to back another referendum.
The UK Government has ruled out a second Scottish independence referendum.
Nicola Sturgeon has told the PM he can't 'bludgeon' Scotland into seeing the world the way he does.
Boris Johnson's party has cleared the hurdle of seats needed to govern in the Commons alone.
The SNP are on course to win 55 seats, up 20 and their second best result of all time.
All the Scottish party leaders are out on the campaign trail ahead of Thursday's election.
The debate will be broadcast live on STV at 8pm on Tuesday night.
Politicians will seek to win over Scotland's voters as they gear up for the general election.