I searched for Mileways ios app
and got the results in the screenshot below. The top four links are all for the same app, with different localization.

Kagi should identify when results are for the same app by checking the app ID (in this case, id1538561618
), and showing only the top matching result, or (better) show the URL that matches the user's locale.
The App Store URLs have this format:
https://apps.apple.com/{COUNTRYCODE}/app/track-flights-mileways/id1538561618
Where {COUNTRYCODE}
is us
, gb
, etc. This is the only part of the URL that differs between the results shown.
Kagi probably considers these different results because the title of the page is different (I presume the app publisher can specify a different app name for each localization).