Rotorua went on to win the National Top 4 competition at home and were crowned national champs for the first time since 2003.
An independent investigation was launched after they won the title to review the policies and processes governing schoolboy eligibility.
The independent investigation, carried out by Peter Dale, has since been completed.
A number of recommendations have been adopted by NZSSRU for the 2016 season.
NZSSRU chairman Garry Chronican reiterated yesterday that the breach of rules by Rotorua Boys' was not deliberate and there would be no sanction.
He also added, as this year's 1st XV national champions, Rotorua would now be invited to attend the 2016 Sanix World Rugby Youth Invitational Tournament in April next year in Japan.
"It's important that we learn from this incident and put in place robust new rules so there's no repeat of the issues we have just dealt with," Chronican said.
"We're all passionate about the game and fully understand the depth of feelings this issue aroused. We're confident the new processes we're putting in place will make the rules easier to understand and apply."
Rotorua Boys' principal Chris Grinter said it marked the end of a long saga for the school and they were happy to be cleared as rightful national champs.
"Absolutely, the air has been cleared now and we have been waiting for that. This saga did take a bit of gloss off our win so now the boys can enjoy the magnitude of their season just a little bit more," he said.
Grinter said it was a lengthy and robust review carried out by Dale, and he was glad a full review could be done which would improve processes for schools, and showed Rotorua had not made a deliberate breach.
"It was a thorough review and we certainly won't be making the same mistake again," he said. "This will be good for all schools. I think it is in some ways timely."
Rotorua were the first New Zealand school to win the Sanix tournament back in 2003.
-The recommendations which have been adopted by NZSSRU for the 2016 season are:
1. NZSSRU seek the assistance of the New Zealand Secondary Schools Sports Council (NZSSSC) to make a comprehensive revision of the rules and regulations for the competition, with a focus on eligibility rules, timely disclosure of relevant documentation, complaints/disputes/non-compliance processes including sanctions available, and clarification of roles and responsibilities.
2. NZSSRU develop a Complaints Procedure for schools and NZSSRU to follow in the case of a protest or complaint or non-compliance by a participant in an NZSSRU competition that involves independent "judicial" personnel.
3. NZSSRU consider an Appeals Process for its Disputes Committee decisions.
4. NZSSRU should liaise with New Zealand Rugby and Super Rugby Licensees or Provincial Unions to see if more administrative support can be made available for organising the Top 4 championship.
The NZSSRU will approach the NZSSSC to encourage the council to adopt recommendations 5 & 6.
5. NZSSSC review its communications processes when changing or clarifying rules.
6. NZSSSC should consider the merits of using the ENROL data system and seek the authority of Ministry of Education to have sole adjudicating use of such data in the matter of eligibility disputes in a sporting context. In this way the NZSSSC [which makes the eligibility rules] can sign off on the accuracy of eligibility information in respect of each match.
