Fully　Programmable　Valve　Array　(FPVA)　biochips　have　attracted　much　attention　as　a　new　generation　of　continuous-flow　microfluidic　platform　for　biochemical　experiments　automation.　With　the　increasing　density　of　microvalves　in　FPVA　biochips,　the　control　system　for　managing　the　open/close　of　these　valves　has　become　more　and　more　complex.　To　improve　the　scalability　of　biochips　and　reduce　the　number　of　control　pins,　a　highly　efficient　control　system　using　multiplexer　and　boolean　logic　has　been　introduced　in　FPVA　biochips.　In　the　manufacturing　and　using　of　such　systems,　however,　various　faults　such　as　channel　blockage,　channel　leakage,　and　reliability　issues　caused　by　frequent　valve　switching　can　occur　in　the　multiplexers.　Accordingly,　in　this　paper,　we　propose　the　first　automated　fault　test　method　for　the　multiplexer　of　FPVA　control　systems.　The　proposed　method　includes　the　following　key　techniques:　1)　an　automated　test　pattern　generation　algorithm　based　on　integer　linear　programming　and　2)　an　automated　fault　test　strategy　based　on　image　recognition　technology.　Experiment　results　on　multiple　benchmarks　have　shown　that　the　proposed　method　can　generate　fewer　test　patterns,　while　achiving　100%　fault　coverage.