The reopening will also be welcome to Syria, whose economy has been devastated by the war.
The news came as Syrian Foreign Minister Walid Muallem discussed "speeding up" the reopening of the country's border crossings with Iraq at a meeting with his Iraqi counterpart Ibrahim al-Jaafari in Damascus.
The area in Syria's Deir el-Zour province has been witnessing days of intense clashes between IS and SDF fighters amid bad weather and low visibility.
Jordan government spokeswoman Jumana Ghunaimat said the Naseeb crossing would be opened Monday after operational details have been agreed upon, according to the Jordanian Petra news agency.
The Syria-Jordan crossing, known as Jaber from the Jordanian side and Nassib on the Syrian side, was a major link for direct trade between the neighbouring countries as well as longer-distance transit, which was a significant source of revenue.
A vital border crossing linking Syria and Jordan has reopened for the first time in three years, promising to restore commercial trade and travel between the two countries.
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The reopening of the crossings is a major boost to the Syrian government, keen on sending messages to its citizens and the world that it is slowly emerging victorious from the bloody conflict and beginning to restore vital services and relations.
Almost 450,000 Syrians have been killed in the war, and the country has been devastated by the violence that drew the involvement of foreign militaries of regional and global powers as well as foreign militias and militants.
The crossing is also important to Syria's neighbor, Lebanon, which has used it for access to foreign markets for its agricultural exports. The victory in southern Syria signaled the return of his forces to Daraa province where the uprising against him began seven years ago.
This picture taken from Syria shows the Syrian national flag in front of the United Nations peacekeepers bunkers and part of the Quneitra border crossing during its reopening on October 15, 2018.
"Today is a celebration for us and I wanted to be among the first to cross the border", said Syrian businessman Mohammed Hisham as he waited for his turn to enter Syria from Jordan where he now lives.
Regime forces recaptured the Quneitra area in July.
Israel captured much of the strategic Golan plateau from Syria in the 1967 Six Day War and later annexed it in a move not recognized by the global community. The UNDOF deployed in the area in 1974.