On-wire lithography (OWL) fabricated nanogaps are used a new testbed to construct molecular transport junctions (MT Js) through the assemble of thiolated molecular wires across a nanogap formed between two Au electrodes. In addition, we show that one can use OWL to rapidly charcaterize a MTJ and optimize gap size for two molecular wires of different dimensions. Finally, we have used this new testbed to identify unsual temperature-dependent transport mechanisms for a,w-dithiol termianted oligo (phenylene ethynylend).