Antoine,
I would suggest automating the process. Alas, something LabVIEW is good at.
Place the files in a directory, then, in LabVIEW, create an array of filenames in the directory. Then run your conversion in a for loop based on the filenames.
As I don't have LabVIEW 4 anymore, I don't know how to automate the conversion. However, I would suggest the following. Open the datalog file reading VI from version 4 into your latest version of labview. Save as a .llb, all inclusive, and allow it to be converted. Then, drop this into your VI, and simply read the datalog files with the converted, old version, and write them back using the new datalog file writing utility.
Let us know if this works.
Good luck