Looking at the 2 different Charles Shields minor league stats I am inclined to say they are the same person
Major Leaguer Charles Jessamine Shields:
http://www.baseball-reference.com/mi...d=shield002cha
and Minor Leaguer Charles Shields:
http://www.baseball-reference.com/mi...d=shield001cha
You can see the continuity between the 1907 Memphis w/ the prior and the 1908-09 Memphis records w/ the latter. However, I'm not sure this is the right Shields (but probably is).
The Whelan/Whalen question is trickier b/c for them to be the same person he woul have had to theoretically start w/ the Georgia State League team as a 16 year old (not unheard of but that is pretty young). Again, I'm not sure this is the right guy that is pictured on the T210 (but probably is).
Edited to add: it should be added the player they have as J. F. Whalen playing for Junction city in 1909 is obviously James Francis (Jimmy) Whelan whom they have w/ Junction City in 1910.