Unique, it seems you are confused with tenses there. Try this guide.
I attended the meeting this morning --> Past Simple
I have attended the meeting --> Present Perfect
I had attended the meeting by the time he came --> Past Perfect
Jenny has [you cannot use "have" here] been working with us for the past six years --> Present Perfect Continuous
Jenny had been working with us for six years when I retired --> Past Perfect Continuous
I have prepared the letter to Mr. John today --> again Present Perfect
I had prepared the letter to Mr. John when he asked me to give him it --> again Past Perfect
Our organization has been a leader of the industry --> again Present Perfect
Our organization had been a leader of the industry by that time --> again Past Perfect
Hope that helps.