Driver Ian Gillham, from Whiston, was paralysed from the waist down after his crane fell onto a block of flats.
His tower crane was building a new hotel and apartment blocks at Kings Dock Mill.
More than 100 people had to be moved from their homes and Mr Gillham was rescued from the roof.
Bowmer and Kirkland and Bingham Davis face charges at Liverpool Magistrates’ Court on 19 May.
Derbyshire-based Bowmer and Kirkland has been charged with breaching Sections 2(1) and 3(1) of the Health and Safety at Work Act 1974.
The Manchester-based consultant has been charged with breaching Section 3(1) of the Act.