You can't compare aircraft looking on its stats on paper only. Weapon may look good but can fail in way it is used.
That is the case of MiG-1 / MiG-3.
Aircraft was modern in its times, build as high altitude interceptor (it wasn't designed as dogfighter) and it seems to have good performance in altitudes (was faster than Bf109 there).
So why it failed and was unpopular by most of soviet pilots?
1. Air combat over russian front was rarely fought high due to way both sides used their airforces -for ground support.
2. MiG was dificult and unstable to fly with sometimes unpredictable behavior, requiring experienced pilot.
3. For Soviets MiG was expensive and relatively dificult to maintain.
4. Its design (as well as that of Yak and LaGG) was full of faults becouse of hurry and presure under which it was born, tested and put to production. MiG-1 was found to be full of child illneses and was quickly replaced with MiG-3 which was just improved version dealing with most critical faults.
5. MiG used the same powerplant as Il-2 ...that finaly doomed its development. There were some prototypes of more advanced variants build but newer reached production. Early Yaks and LaGGs had similar problems and later both developed to very succesfull aircrafts. MiG did not get such a chance.
http://users.belgacom.net/aircraft1/avion1/167.html#1616
In general Soviet air force needed simple, cheap, easily produced aircraft which require little maintance, can be easily controled in air and have good low level performance. Such aircraft have to be produced in high numbers by unskiled workers in redeployed or quickly established factories in bad conditions of Ural or Siberia. Unexperienced pilots should quickly learn to fy it.
...All this was wery important especialy at the begining of war since Russians were under bad pressure, lacking experienced pilots, mechanics, factory workers, rare materials, with low production quality, sustaining heavy looses.
It is no wonder that MiG failed.
Bye the way, Yak-1 ang LaGG-3 wasn't that much more succesful (LaGG was wery unpopular, may be more than MiG)