This is a very good question...how to practice and how to do it properly, what goals to set etc..
Being a bit thick and never being quiet sure how to go about it I made some set timetables which I stick to, if nothing else it makes sure I have covered all the bases each and every day.
First thing I do an hour or thereabouts of scales and arpeggios, at the moment I go through all the Majors C,D,E,F,G,A,B, making sure that everything is even in tone and smooth in the fingers..I slur I tongue, I do a dotted rythym to get fingers and tongue going nicely together....I also tackle Bb maj, Eb maj Ab maj, Db maj in the same way...I aim to get as high and as low as I can on the isntrument (Oboe- in case anyone didn't know by now

) but still staying in the key I am playing in, this I find increases my ability to get up into the third octave and keeps the fingering supple and now I float quite easily all the way up and down...Long notes, chromatics, scales in thirds and fourths if I am feeling brave.
I then have break, tea and do some work till lunchtime then I hit the studies, Hinke or Ferling at the moment, also some James Brown ( yes I know I thought that too..."git up git on up

) they are the very devil for fingers so like a sour medicine they must be doing me some good...so I battle on with them, breaking them down bar by bar, phrase by phrase upping the tempo a little each time till they are sitting under my hands well and I am not having to think too hard about them.
Another break then I do pieces in the late afternoon early evening, again for an hour or thereabouts..I don't tend to do too many at the same time I like to concentrate on one at a time, that works for me. Maybe go over some old ground and discover what I once found difficult is no longer the case which is always encouraging...
Anyway thats what I do, not sure if thats the right way but it seems to work for me...
hope that helps
regards
Andrew