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Winger Anthony Gordon got himself banned for three games after being shown a straight card in their dramatic FA Cup defeat at home to Brighton on Sunday, although the Magpies can appeal the decision.
It then emerged on Tuesday that left-back Lewis Hall would miss the remainder of the season after suffering a foot injury.
In addition, there are also concerns over striker Alexander Isak, who limped off before extra-time against Brighton.
Now Botman has joined the trio on the sidelines, with the Mail reporting that he's due to undergo surgery on a knee problem.
The 25-year-old has missed the Magpies' last five games and a meeting with a specialist this week determined that surgery is the best course of action.
There was a boost for Newcastle fans on Tuesday afternoon, as Isak was spotted taking part in the club's promotional day ahead of next Sunday's final?
"Newcastle United defender Lewis Hall will miss the rest of the 2024/25 season after sustaining an injury to a bone in his foot," Newcastle posted on their website.
"The 20-year-old was injured during the Magpies' Premier League fixture at Liverpool.
"Following a scan and advice from a specialist, Lewis will undergo surgery before a period of rehabilitation with the club's medical team.
Everyone at Newcastle United wishes Lewis the very best with his surgery and recovery."
Howe is expected to provide an update on his squad at a press conference on Friday, previewing Monday's trip to West Ham.
For more news relating to West Ham, visit our sister site WHU Latest Live.