would  definatly at minimum treat it

are you shure the timbers dont do anything !!!!
would suspect they support the soffits and bardgeboards ect

best solution is replace the soft timber overlapping /splicing as nessesery

if the ends definatly serve no purpose best to remove to solid timber as soft timber will hold water like a sponge

any odd soft spots that arnt effecting the structure and are to difficult to remove should be treated with stabelising solution /wood hardner and that will repell the water