I cannot seem to reproduce this from emacs -Q, nor do I see this issue
when I start Emacs up (I use the daemon if that makes a difference [2]).
It naturally shows up after using Emacs for a while, sometimes reopening
the frame fixes the clipping problems, sometimes I have to reevaluate
the set-fontset-font form to fix it.  And this issue isn't font-specific
as well: I had the same problem with "Noto Serif."  I would highly any
hints towards nailing the problem down; I'm really out of ideas.

If I didn't make it clear, there are no such problems if I don't modify
the default fontset.

[1] I also modify the default fontset for other scripts,

      (set-fontset-font t 'mathematical "Kurinto Mono" nil 'prepend)
      (set-fontset-font t 'mathematical "Latin Modern Math" nil 'append)
      (set-fontset-font t 'symbol "Latin Modern Math" nil 'append)
      (set-fontset-font t 'emoji "Kurinto Mono")
      (set-fontset-font t 'emoji "Kurinto Sans" nil 'append)
      (set-fontset-font t 'emoji "DejaVu Sans" nil 'append)

    and I set the language and the locale environment to Tamil and
    ta_IN.utf8 respectively, before modifying the fontset.

[2] Modifying the fontset in `server-after-make-frame-hook' does not
    make a difference.  I don't see the issue when I do not use the
    daemon but I believe I haven't run the non-daemon session long
    enough.

In GNU Emacs 29.0.50 (build 1, x86_64-pc-linux-gnu, X toolkit, cairo version 1.16.0, Xaw scroll bars)
Repository revision: ca3858563c7ba8ee3caa82fbd2b7c386ea60c0d3
Repository branch: master
Windowing system distributor 'The X.Org Foundation', version 11.0.12013000
System Description: NixOS 21.11 (Porcupine)

Configured using:
 'configure
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 --disable-build-details --with-modules --with-x-toolkit=lucid
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Configured features:
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Important settings:
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Load-path shadows:
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/home/viz/lib/emacs/straight/build/map/map hides /nix/store/iqqk7iqfwmfc6r78xg2knyq7hww2mhs4-emacs-git-20220225.0/share/emacs/29.0.50/lisp/emacs-lisp/map
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Memory information:
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