The name comes precisely from the Roman mansion of Iuncaria, which is not located under the current population but several kilometers away, in Figueras.6 La Junquera was the scene of a conflict involving retreating French crusaders in 1285 that ended in their defeat.

The Treaty of the Pyrenees (1659) placed the new border between the Spanish and French monarchies in the Albera mountain range, a fact that marked the subsequent history of La Junquera.

List of toponyms in La Jonquera (Topography: mountains, ranges, hills, places...; hydrography: rivers, fountains...; buildings: houses, farmhouses, churches, etc.).

Castles declared cultural assets of national interest: Romanesque hermitages: Megalithic monuments: The area around La Jonquera was seriously affected by fatal wildfires that devastated large swathes of forestry in northern Catalonia in July 2012.

At present, the basis of the municipal economy is the activity derived from the Portús customs office - the name of the town of Pertús in Emporda, part of which (the Límits district) belongs to La Jonquera.