The prestigious ceremony has been part of British comic culture since 1977, but it was announced at this year's London MCM Expo that they will be making way for the MCM Awards.
MCM managing director Bryan Cooney closed this year's awards by revealing the news, but Conroy has since claimed that the organisation is not in a position to decide the future of the Eagles, despite holding partial ownership.
"To paraphrase Mark Twain: The reports of the Eagles' death have been greatly exaggerated," said Conroy, whose father Mike co-founded the awards in 1977.
"No third party can casually discard what my father has developed over the past 36 years. The Eagles will continue to soar into 2013 and beyond. We'll be announcing further details of our plans for next year in the near future."
The Eagle Awards were presented annually between 1977 and the early 1990s, before being revived in 2000. They moved to the MCM Expo in 2010.