Your weight should be supported by your "sit bones" and not any of your sensitive parts. If you have a gel saddle, which is cushy, your body weight will sink down into it and cause it to put pressure "there". I had issues like that and a harder narrower saddle supported the sit bones and all was better. Every persons sit bones have a different width and the saddle should be centered on them.

Also.....You said the saddle feels high. When pedaling your hips should not be rocking side to side because that will cause injury to your legs (too much extension) and to your yee haw.