Jindřichův Hradec District is the second largest Czech district with an area of 1,944 km2 (751 sq mi). It borders Austria in the south. About a fifth of the district territory in the east belongs to the historical land of Moravia.
The relief is rugged and hilly except in the west, which belongs to a tectonic depression. The territory extends into four geomorphological mesoregions: Javořice Highlands (south and centre), Třeboň Basin (west), Křemešník Highlands (north) and Křižanov Highlands (east). The highest point of the district is a contour line on the mountain Javořice in Studená with an elevation of 804 m (2,638 ft), the lowest point is the river bed of the Lužnice in Ponědrážka at 410 m (1,350 ft).
From the total district area of 1,943.8 km2 (750.5 sq mi), agricultural land occupies 902.1 km2 (348.3 sq mi), forests occupy 761.1 km2 (293.9 sq mi), and water area occupies 136.1 km2 (52.5 sq mi). Forests cover 39.2% of the district's area.[1]
The territory is rich in watercourses and ponds. The most important rivers are the Lužnice and its tributary, the Nežárka, both flowing through the western part of the district. The eastern part is drained by the Moravian Thaya. The area of the Třeboň Basin is known for its fishpond system, which includes the largest pond in the country Rožmberk and many other large ponds.
The western part of the district is protected as the Třeboňsko Protected Landscape Area.
There are no motorways in the district. The most important roads are I/24 and I/34, which leads from České Budějovice through the western part of the district to the border with Austria, and are part of the European route E49.