While in production, many ideas were thrown out about on how to animate the bulbous Biollante. One such idea, a vast departure from effects seen in the Godzilla series to date, was to construct a claymation Godzilla that was to be attacked by Biollante's twisting vines. The claymation allowed for more convincing motion from the the snake-like tendrils, but in the end, the effect was removed from the final cut.

With Godzilla's strength waning on the account of the Anti-Nuclear Energy Bacteria, Biollante readied her final strike. Working now, hand in hand with the spirit of Erika, the plant monster transformed its physical form into a wash of energy. Swamping the nearly dead Godzilla, Biollante took the sins of the nuclear saurian with it to the grave.

A combination of live action suitmation and animation, the scene was completed with all of the post production elements finished. However, the scene was axed from the final print, and instead a different ending with Godzilla collapsing into the nearby water and Biollante returning to the sky was drafted. The scene was an impressive combination of the two film making mediums, but in context the means of creating the scene would have been far to distracting to the overall theme of Biollante's final moments.