As　an　essential　part　of　transportation　systems,　inland　waterway　transportation　is　economical　and　sustainable.　However,　traffic　congestion　and　vessel　collision　often　occur　in　controlled　waterways,　which　has　greatly　restricted　the　development　of　inland　waterway　transportation.　This　paper　designs　a　Cyber-Physical　System　based　intelligent　vessel　scheduling　system　(IVSS)　for　controlled　waterway　traffic　management　and　details　the　data　acquisition,　data　transmission,　and　data　processing　process.　IVSS　has　been　applied　in　the　upper　reaches　of　the　Yangtze　River　as　a　part　of　the　Yangtze　Digital　Waterway　construction　project.　The　practical　application　confirms　that　IVSS　enhances　the　controlled　waterway　traffic　capacity　by　reducing　the　vessels＇　waiting　time.　　©　2022　IEEE.