Confusion about question on Immigration Service webpage preceding starting online visa application

[Garysan]

Please can anybody help with this query about this question on the government’s website?
We are now starting to prepare the application for my wife’s next Leave to Remain visa (current one expires in August). In the very first stages of starting a visa application online (before actually getting to the stage of filling in a form) on this webpage https://visas-immigration.service.gov.uk/next this question appears -
Were you originally granted leave on the basis of an application made before 9 July 2012 as a partner on the family route?
Your original leave to remain would have been for 2 years. You cannot have had an application considered, granted or refused on another route since that time.

We are not sure how to answer this question, or what it’s relevance is.

This is her visa history -
• She obtained a visitor visa via the British Embassy in Tokyo in September 2008 (valid to March 2009) and came to the UK in October 2008.
• She obtained a Tier 5 Youth Mobility Scheme visa April 2009 (valid until April 2011).
• She obtained a spouse/partner visa & residence permit in April 2011 (valid until April 2013).
• She returned to Japan in April 2013; she did not apply to renew her permit and it expired 14/4/2013 (we had relationship problems).
• She subsequentially re-applied for a partner visa in Japan in October 2017, was successful and re-entered the UK in March 2018.
So she was “originally granted leave on the basis of an application made before 9 July 2012 as a partner on the family route” and has not “had an application considered, granted or refused on another route since that time.“ She has had an application considered on the SAME route since that time but not on ANOTHER route.
I do not what the relevancy of this question is, as I thought her visa history up to 2013 is no longer relevant to her current visa process (excepting that they just want to know her visa history). If she answers “Yes” what bearing will it have on her current application? Is it irrelevant to her case so more appropriate to answer “No” (so as not to confuse matters relating to the current application) even though technically that is incorrect?
Thank you.