Little Indian Run begins in a pond at the base of Huckleberry Mountain in Franklin Township, Lycoming County.

It flows east-southeast for a few tenths of a mile, briefly passing through Davidson Township, Sullivan County.

After a few tenths of a mile, it turns southwest for a short distance, crossing Pennsylvania Route 442 and reaching its confluence with Little Muncy Creek.

[1] The surficial geology along the middle reaches of the valley floor of Little Indian Run mainly consists of alluvium.

However, bedrock consisting of sandstone and shale makes up the surficial geology on the sides of the stream's valley in this reach.

[4] The upper reaches of Little Indian Run are in an area that was covered in glaciers during the Wisconsinan Glaciation.

has applied for and/or received a permit to build and maintain a natural gas pipeline crossing the stream.

[3] This variant name appears in the 1880 book The Geology of Lycoming County by Andrew Sherwood and Franklin Platt.