* 2021, Elected Fellow, Akademiet for de Tekniske Videnskaber
* 2019, Grundfosprisen, Poul Due Jensen Foundation<ref>{{Kilde www|titel=Grundfosprisen 2019|url=https://vbn.aau.dk/da/prizes/grundfosprisen-2019}}</ref><ref>{{Kilde www|titel=VILD PRIS: MORTEN FÅR EN MILLION I DAG|url=https://aalborgnu.dk/nyheder/vild-pris-morten-faar-en-million-i-dag/4d39c351-e820-4efa-9c7b-ebae8dccbc9e}}</ref><ref>{{Kilde www|titel=Professor Morten Mattrup Smedskjær, Aalborg Universitet, vinder Grundfosprisen 2019|url=https://www.altinget.dk/misc/Grundfosprisen%202019%20til%20Morten%20Mattrup%20Smedskjær%20AAU.pdf}}</ref>
* 2019, W.H. Zachariasen Award, Journal of Non-Crystalline Solids<ref>{{Kilde www|titel=W.H. Zachariasen Award|url=https://vbn.aau.dk/da/prizes/wh-zachariasen-award}}</ref>
* 2019, Vittorio Gottardi Prize, International Commission on Glass<ref>{{Kilde www|titel=Vittorio Gottardi Prize|url=https://vbn.aau.dk/da/prizes/vittorio-gottardi-prize}}</ref>
* 2018, Sir Alastair Pilkington Award, Society of Glass Technology<ref>{{Kilde www|titel=Sir Alastair Pilkington Award|url=https://vbn.aau.dk/da/prizes/sir-alastair-pilkington-award}}</ref>
* 2016, Corning’s 2015 Outstanding Publication Award, Corning Incorporated, USA<ref>{{Kilde www|titel=Corning’s 2015 Outstanding Publication Award|url=https://vbn.aau.dk/da/prizes/cornings-2015-outstanding-publication-award}}</ref>
* 2014, Teacher of the Year, Institut for Kemi og Biovidenskab, AAU  
* 2013, Lundbeck Foundation’s Talent Prize, Denmark<ref>{{Kilde www|titel=Lundbeck Foundation’s Talent Prize|url=https://vbn.aau.dk/da/prizes/lundbeck-foundations-talent-prize}}</ref><ref>{{Kilde www|titel=Morten Mattrup Smedskjær|url=https://lundbeckfonden.com/morten-mattrup-smedskjaer}}</ref>
* 2012, Corning’s 2011 Outstanding Publication Award, Corning Incorporated, USA<ref>{{Kilde www|titel=Corning’s 2011 Outstanding Publication Award|url=https://vbn.aau.dk/da/prizes/cornings-2011-outstanding-publication-award}}</ref>
* 2012, Spar Nord Foundation’s Research Award, Denmark<ref>{{Kilde www|titel=Spar Nord Foundation’s Research Award|url=https://vbn.aau.dk/da/prizes/spar-nord-foundations-research-award}}</ref>
* 2011, Best Ph.D. Award from Danish Academy of Natural Science, Denmark<ref>{{Kilde www|titel=Best Ph.D. Award|url=https://vbn.aau.dk/da/prizes/best-phd-award}}</ref>
* 2010, Norbert J. Kreidl Award from American Ceramic Society, USA<ref>{{Kilde www|titel=Norbert J. Kreidl Award|url=https://vbn.aau.dk/da/prizes/norbert-j-kreidl-award}}</ref>
* 2010, Elite Research Scholarship from Danish Ministry of Science, Denmark<ref>{{Kilde www|titel=Elite Research Scholarship|url=https://vbn.aau.dk/da/prizes/elite-research-scholarship}}</ref>
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