The problem is that I am not so convinced of Pakistan setup that hasn't produced a single fast bowler with 200 test wickets in this millennium even though there were many who looked solid prospects in their young days.
In contrast, Indian bowling factory has gotten better from past and Shami already has 180 test wickets to his name at 27, Ishant v2.0 has been phenomenal in past 5 years and Bumrah had a dream start to his test career in his overseas tours to South Africa, England and Australia. Hence, you can't compare Naseem to Shami and Bumrah's age. Even Umesh Yadav has gotten so better in past few years.
I am afraid if Pakistan's setup will be able to handle the development of Shaheen Shah and Naseem Shah in the right way. Think former will find a way anyways but doubt about the latter.
These talents come once a generation. Waqar and Wasim made use of it, Amir and Asif didn't. Both of them should have been at 200+ if not more test wickets by now, with Asif's actual retirement having come two or so years ago had things run their course, rather than the scandal both of them got caught up in. If Bumrah and lets say Nagarkoti (who seems to be the most talented young Indian bowler), were suspended tomorrow due to spot fixing, India would lose its own once in a generation bowler and would be set back a decade. This is what happened with Asif and Amir. Akin to these once in 15 year generations, Shaheen and Naseem are the current generation of talent.
The idea is that this generation can definitely come good if they develop well. All we need is two world class pacers (one being Shaheen, the other being either Naseem, Hasnain, or Akif) with all these other pacers serving second fiddle to manage workloads. If you ask me, the Pakistani setup isn't at all bad for fast bowlers. It's bad for players in general given the fixing epidemic and attitude issues. As long as Shaheen, Naseem, Akif, and Hasnain avoid drugs, bookies, and manage their workloads alright, especially under the guidance of Waqar Younis and the occasional tip from Wasim Akram, they should be okay.
Occasionally Hasan Ali is brought up as an example of mismanagement by the Pakistani set up. My answer to that is simply a mix of height (1 inch shorter than Bumrah, 2 inches shorter than Naseem, 4 inches shorter than Hasnain and Akif, and 9 inches shorter than Shaheen), as well as pace, which has never even come close to the kind of pace that all of the above are generating. Similar goes for all the other bowlers that have been hyped as generational talents in Pakistan over the last ten years such as Mohammad Abbas who didn't have height and pace working for him, only a deadly accuracy. The only bowlers worth comparing to are Sami, Akhtar, Amir (could have been Pakistan greats) with Asif perhaps one tier higher (could have been Pakistan ATG). This new generation has height, swing, seam, and pace. Naseem, the smallest, has probably the best combination of the other three, while Shaheen is best amongst all of these. Akif and Hasnain are tall and show the ability to improve (Hasnain's seam position has gotten so much better in the last year, and he's still 19 so I'm hoping it improves further).
For the same shortcomings that plagued these other bowlers above, my personal feeling is Musa Khan will never make it to that next level due to a cripplingly small height and inability to swing the ball for now. So yes perhaps he can be compared to Ajit Agarkar. Faheem Ashraf and Amad Butt are all rounders, and do not enter this discussion.