A fingerprint sensing control device and an operation method thereof are provided. The fingerprint sensing control device includes a touch control circuit and a fingerprint sensing control circuit. The touch control circuit determines a touched region of an object on the touch panel. The fingerprint sensing control circuit performs a fingerprint sensing control on the touch panel and determines a target sensing sub-region overlaid by the touched region from a plurality of sensing sub-regions of the fingerprint sensing region of the touch panel. When the target sensing sub-region comprises a first sensing sub-region and a second sensing sub-region that are adjacent to each other, the fingerprint sensing control circuit starts to scan the first sensing sub-region in a first direction from a common edge between the first sensing sub-region and the second sensing sub-region and starts to scan the second sensing sub-region in a second direction from the common edge.