Yes, the intended target would determine which type of bomb would be used.
Consideration as to whether the bomb would penetrate structures to do required damage to the contents inside (like machine tools in a factory) or if merely blowing the roof off is required.
In the case of the RAF they used mainly 500lb and 1000lb MC and GP bombs (British GP bombs were older and less effective).They also used 4000lb bombs of both HC and MC types. They didn't have a 2000lb MC bomb, and didn't much use the pre-war 1900lb GP bomb.
To my mind the splinters are most effective against soft targets - ie humans. For industrial targets I would think the blast bomb just as effective, if not more so, than the GP/MC types.
109 Squadron Operational Record Books show that in 3 raids on the synthetic oil plant in late June/Early July 1944 different bomb loads were carried. The first raid (25/26 June) saw a load of 4000lb MC bombs (for those not carrying TIs). The second raid (30 June/1 July) was with 4000lb HC Cookies (when noted and not carrying TIs). The third on 1/2 July was with 6 x 500lb MC bombs.
139 Squadron notes in their ORB for July 4/5 that they took part in raids against oil refineries at Scholven, and that they were part of a total force of 24 Mosquitoes, 12 of which carried 4000lb bombs.
They attacked Scholven again the next night. The total force was 34, 28 of which carried 4000lb bombs. And again on 6/7 July, with 31 of 34 carrying 4000lb bombs.
Although not stated, I believe all these were 4000lb HC bombs.
The conclusion I would draw is that the 4000lb HC bomb was indeed very suitable for industrial targets.