Hi
@Mum22boys and welcome to CC!
I don't use padded shorts because I don't like the feeling, even though from time to time I buy a pair of a different brand on sale ... then still don't like them

Anyhow, I think a comfy saddle set at the angle that suits you (experiment) is the key.
Also, in my experience, if your shape changes the saddle that was comfortable becomes an irritant: I was very happy with the one that came with the first bike I bought, a big cushioned thing, then I lost a stone, changed to a much narrower saddle.
As said above, bike fit influences the way you sit on the bike.
If you change the tilt or the saddle itself, give it about 10 miles before changing again, to get used to the new set up.
It's trial and error, though if you feel your current saddle digging into your nether regions I would say the saddle is either tilted up a smidge too much or it is the wrong shape for you.
Good luck!