Generally, third/fourth innings scores are lower as the pitch wears out, and I would think that bowling more towards the end of the game brings greater rewards to the bowler.
As far as wickets per innings goes, this is mitigated by the fact that bowlers (particularly quick bowlers) tend to bowl less in the third/fourth innings.
Here are some quick numbers: overs, average, strike rate (1st-2nd/3rd-4th innings)
McGrath 2847/2028 22/21 52/52
Hadlee 2468/1185 23/21 51/50
Marshall 1636/1294 23/19 49/44
Murali 4421/2919 24/21 58/51
There is no significant difference in the case of the first two; but the difference for both Marshall and Murali are quite significant.
Ave E/R S/R
McGrath:
1st match innings 22.92 2.58 53.1
2nd match innings 21.20 2.49 50.9
3rd match innings 22.57 2.52 53.6
4th match innings
19.49 2.34 49.8
18% of his overs are 4th innings. This is literally at SK Warne levels in the 4th.
Hadlee:
1st match innings 22.17 2.69 49.3
2nd match innings 23.98 2.61 55.0
3rd match innings 23.00 2.59 53.1
4th match innings 15.62 2.37 39.4
6% of his overs are 4th innings
Streak:
1st match innings 30.88 2.62 70.6
2nd match innings 31.78 2.76 69.1
3rd match innings 18.38 2.35 46.7 *(this is interesting)
4th match innings
25.32 3.19 47.5
9% of his overs are 4th innings
Marshall
1st matching innings 24.41 2.89 50.5
2nd match innings 19.97 2.53 47.2
3rd match innings 19.63 2.69 43.7
4th match innings 17.65 2.33 45.2
11% of his overs are 4th innings
Shane Warne
1st match innings 27.63 2.83 58.3
2nd match innings 28.38 2.66 63.8
3rd match innings 22.67 2.51 54.1
4th match innings
23.14 2.62 52.9
18% of his overs are 4th innings.
Murali:
1st match innings 26.47 2.64 60.0
2nd match innings 21.39 2.30 55.7
3rd match innings 21.11 2.44 51.7
4th match innings 21.01 2.52 50.0
12% of his overs are 4th innings