It depends on how you are using the words. If something is running (ie it is functioning properly), then it is working. In that case, yes, they are synonyms. Otherwise, no they are not synonyms.
run
Move, continue, run, work, extend, flee, develop, or take. Those words mean go.
lines that run east and west
walk or run
There are not too many synonyms for the expression run over. The few that are common include fill over, over run, teem, well over, spill, swell and fill up.
Dash, sprint, gallop or blitz.
hard work, menial work, labor
ostentatious or pretentious work well...
Work, labour etc
Work force (sometimes combined as "workforce") has the synonyms "personnel", "labor pool" or "employees".
Synonyms for managers:AdministratorsBossesCaptainsCEOChairpersonChiefsCommandersComptrollersConductorsControllersCuratorsDirectorsEmployersExecsExecutivesForemanForewomanGovernorsHandlersHeadHead personImpresariosOfficersOfficialsOrganizersOverseersPresidentsPrincipalsProducersProprietorsSuperintendentsSupervisors
spying, intelligence, surveillance, undercover-work