I'm probably not the first to notice that a large number of features of reconstruct Proto-Indo-European are typological irregularities. The most famous of these probably being the voiceless/voiced/voiced aspirated distinction found among the stops, which is of course the stated motivation for the glottalic theory (though I must admit, I don't really see how it helps). Another thing which, to my eye at least, looks extremely odd is the vowel system: /i/ and /u/ basically pattern with the nasals/liquids, and apparent /a ā/ can be entirely explained as actually originating from /eh2/ or /h2e/, so the only vowels which are actually necessary to reconstruct are /e ē o ō/. To put it bluntly, that's just weird. Beyond that, many of the proposals for the phonetic value of the laryngeals seem strange as well. What kind of fricative inventory is /s ɣʷ χ h/ or /s ʕ ʕʷ/? The syllable structure seems very strange as well: why can /h2/ be syllabic but not /s/, for example? Apologies for the flippancy, but some of these claims have always felt a bit unbelievable to me.
I'm not actually trying to cast doubt on the validity of the reconstruction, I understand that many aspects of it are very well substantiated, I'm just trying to get a better grasp on how I'm meant to conceptualize the reconstruction of PIE within the framework of modern typological knowledge. Have these oddities been addressed by any Indo-Europeanists or language typologists? Is there a proposed explanation? Or am I just wrong about what is and isn't a "reasonable" feature for a language to have?