The founder of the Royal Shakespeare Company and former National Theatre director died in September, aged 86.
The company played in Stratford and also expanded into the Aldwych Theatre, as its first London home.
The failure to mark his death prompted dismay and disbelief on social media.
Olivier-winning choreographer Sir Matthew Bourne said the omission was "unforgivable".
Olivier Awards 2018: What else happened?
Actor Michael Sheen introduced the segment, thanking those included "and many others who aren't... for your contribution to our stages".
Tributes poured in for Sir Peter from the likes of Vanessa Redgrave, National Theatre director Rufus Norris, playwright Sir David Hare, actors Sir Patrick Stewart, Laurence Fox and Toby Stephens, when his death was announced previous year.
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The Broncos were traveling to Game 5 of their Canalta Cup semifinal playoff series Friday night in Nipawin. Josh is now a member of the FWAA and USBWA. "Words cannot describe the loss that we feel tonight".
"@OlivierAwards could you please explain why Peter Hall was not included in the list of people we have lost this year?" wrote one Twitter user.
The 62-year-old actress, who was recently nominated for an Academy Award for her role in Paul Thomas Anderson's Phantom Thread, was styled in a chic navy jumpsuit, which she paired with a suede, tan jacket.
Tributes poured in for Sir Peter from the likes of Vanessa Redgrave, National Theatre director Rufus Norris, playwright Sir David Hare and actors Sir Patrick Stewart, Laurence Fox and Toby Stephens, when his death was announced in September past year.
The society added that it had arranged for theatre lights in London's West End to be dimmed when he passed away past year.
The drama which is set in rural Derry in 1981 against the backdrop of the Troubles, won the best play and best director for Sam Mendes, while Laura Donnelly was named best actress.
Other big winners of the night included the National Theatre's revival of Follies which took home the prizes for "Best Musical Revival" and "Best Costume Design", two actresses in Conor McPherson's Bob Dylan musical The Girl from the North Country - Shirley Henderson and Sheila Atim - who won the categories of "Best Actress in a Musical" and "Best Supporting Actress in a Musical", respectively, and Bryan Cranston, whose United Kingdom stage debut performance as Howard Beale in the National Theatre's production of Network earned him an Olivier Award for "Best Actor".
The award for Best Actor in a Play went to Bryan Cranston for Network and Best Supporting Actor went to Bertie Carvel for Ink.