Allen is joined in the centre by Chris Dean, who comes in for the injured Phil Burleigh (shoulder).
Sam Hidalgo-Clyne is set to wear the number nine jersey for the first time this season in place of the injured Nathan Fowles (leg).
The remaining four changes in the pack will see Kevin Bryce makes his first Edinburgh Rugby start at tighthead prop, while Stuart McInally is named at hooker and captain of the side.
Fraser McKenzie comes in at lock in place of the rested Grant Gilchrist while Cornell Du Preez makes his first start of the season at number eight.
Glenn Bryce and Tom Brown retain their starting jerseys to join Hoyland in the back-three, while Dean and Allen are set to play outside of the half-back partnership of Duncan Weir and Hidalgo-Clyne.
Rory Sutherland packs down in the loosehead prop berth alongside McInally and Bryce, while McKenzie is in the boilerroom with Ben Toolis.
Last week's try-scorers, Magnus Bradbury and Hamish Watson, start at blindside and openside flanker respectively, with Du Preez at the tail of the scrum.
On the bench, six players not included in last week's match-day squad will feature for the outing against Munster.
Neil Cochrane, Jack Cosgrove, Lewis Carmichael - who will make his Edinburgh Rugby debut if called upon from the bench - and John Hardie are all brought in as forward replacements - the latter having recovered from a head knock sustained against Scarlets - while Sean Kennedy and Rory Scholes are also included as back replacements.
Head Coach Alan Solomons said: "Saturday presents a huge challenge to the team in which a number of players will get their first starts."
Players unavailable due to injury: Simon Berghan (foot), Anton Bresler (groin), Phil Burleigh (shoulder), Alasdair Dickinson (hamstring), Nathan Fowles (leg), Will Helu (hamstring), Nasi Manu (ribs), Sasa Tofilau (concussion), Jason Tovey (wrist).
Players not considered: Ross Ford, Grant Gilchrist, Viliame Mata, WP Nel, Junior Rasolea, Jamie Ritchie
Edinburgh Rugby team to play Munster
Guinness PRO12, Thomond Park, Saturday 24 September, kick-off 3pm - live on Sky Sports
15. Glenn Bryce
14. Damien Hoyland
13. Michael Allen
12. Chris Dean
11. Tom Brown
10. Duncan Weir
9. Sam Hidalgo-Clyne
1. Rory Sutherland
2. Stuart McInally CAPTAIN
3. Kevin Bryce
4. Fraser McKenzie
5. Ben Toolis
6. Magnus Bradbury
7. Hamish Watson
8. Cornell Du Preez
Substitutes
16. Neil Cochrane
17. Jack Cosgrove
18. Allan Dell
19. Lewis Carmichael
20. John Hardie
21. Sean Kennedy
22. Blair Kinghorn
23. Rory Scholes
Guinness PRO12 Edinburgh News
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