You may want to look at this post, just to give you a visual impression of the ARI portal: SEF ARI Portal - Did you register yourself or just let lawyer handle this? - #4 by Username1.1.
There is a section at the bottom of the first page where the different documents are uploaded. A document can be replaced at a later stage - by clicking on the cross and uploading a new document eg if SEF requests the apostilled version for pre-approval.
It is possible that your lawyer prefers to have the ARI application in, so that the application date is registered by SEF - as this date may be important if changes to the GV laws occur. At present, they may not be willing to take the risk that replacing a document alters the official ARI submission date. When they assess your submission, SEF will certainly specify whether the documentation uploaded is sufficient or is lacking in some aspect (eg apostille) before providing pre-approval.
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